Type ID Version Number of files Size in bytes (total) Summary
gene_score gene_properties/gene_scores/Iossifov_Wigler_PNAS_2015 0 6 7.8 MB
gene_score gene_properties/gene_scores/LGD 0 7 531.84 KB
gene_score gene_properties/gene_scores/RVIS 0 7 450.58 KB
gene_score gene_properties/gene_scores/SFARI_gene_score 0 6 124.6 KB
gene_score gene_properties/gene_scores/Satterstrom_Buxbaum_Cell_2020 0 6 613.37 KB
gene_score gene_properties/gene_scores/pLI 0 7 893.37 KB
gene_score gene_properties/gene_scores/pRec 0 7 895.21 KB
gene_set gene_properties/gene_sets/GO 0 4 12.07 MB
gene_set gene_properties/gene_sets/MSigDB_curated 0 3 3.12 MB
gene_set gene_properties/gene_sets/autism 0 7 4.37 KB
gene_set gene_properties/gene_sets/disease 0 3 66.76 KB
gene_set gene_properties/gene_sets/domain 0 3 391.19 KB
gene_set gene_properties/gene_sets/main 0 17 103.89 KB
gene_set gene_properties/gene_sets/miRNA 0 4 1.6 MB
gene_set gene_properties/gene_sets/miRNA_Darnell 0 3 95.15 KB
gene_set gene_properties/gene_sets/relevant 0 15 101.75 KB
gene_set gene_properties/gene_sets/sfari 0 11 11.53 KB
gene_set gene_properties/gene_sets/spark 0 5 1.22 KB
gene_models hg19/gene_models/ccds_v201309 0 5 2.56 MB
gene_models hg19/gene_models/knownGene_v201304 0 5 5.49 MB
gene_models hg19/gene_models/refGeneMito_v201309 0 5 3.98 MB
gene_models hg19/gene_models/refGene_v201309 0 5 3.97 MB
gene_models hg19/gene_models/refGene_v20190211 0 5 5.47 MB
genome hg19/genomes/GATK_ResourceBundle_5777_b37_phiX174 0 93 2.94 GB ## HG19 Reference Genome Default HG19 reference genome used by GPF
np_score hg19/scores/CADD 0 10 79.37 GB ## CADD Downloaded from https://cadd.gs.washington.edu/download ; Higher values of raw scores have relative meaning that a variant is more likely to be simulated (or "not observed") and therefore more likely to have deleterious effects. Scaled scores are PHRED-like (-10*log10(rank/total)) scaled C-score ranking a variant relative to all possible substitutions of the human genome (8.6x10^9).
position_score hg19/scores/FitCons-i6-merged 0 8 105.17 MB TODO
position_score hg19/scores/FitCons2_E035 0 8 291.52 MB TODO
position_score hg19/scores/FitCons2_E067 0 8 260.97 MB TODO
position_score hg19/scores/FitCons2_E068 0 8 270.23 MB TODO
position_score hg19/scores/FitCons2_E069 0 8 262.13 MB TODO
position_score hg19/scores/FitCons2_E070 0 8 262.33 MB TODO
position_score hg19/scores/FitCons2_E071 0 8 255.46 MB TODO
position_score hg19/scores/FitCons2_E072 0 8 257.61 MB TODO
position_score hg19/scores/FitCons2_E073 0 8 266.95 MB TODO
position_score hg19/scores/FitCons2_E074 0 8 262.12 MB TODO
position_score hg19/scores/FitCons2_E081 0 8 276.04 MB TODO
position_score hg19/scores/FitCons2_E082 0 8 278.89 MB TODO
position_score hg19/scores/Linsight 0 8 1.35 GB TODO
np_score hg19/scores/MPC 0 9 2.26 GB TODO tabix -s 1 -b 2 -e 2 -f fordist_constraint_official_mpc_values_v2.txt.gz
position_score hg19/scores/phastCons46_placentals 0 8 10.55 GB ## phastCons46way placentals This score is from: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/phastCons46way/README.txt This directory contains compressed phastCons scores for multiple alignments of 45 vertebrate genomes to the human genome, plus an alternate set of scores for the primates subset of species in the alignments, and an alternate set of scores for the placental mammal subset of species in the alignments. For a description of the phastCons fixed step wiggle data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html The multiple alignments and methods description are at: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/multiz46way/ For a description of the phastCons data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html Assemblies used in these alignments: - Human Homo sapiens Feb. 2009 hg19/GRCh37 - Chimp Pan troglodytes Mar. 2006 panTro2 - Gorilla Gorilla gorilla gorilla Oct. 2008 gorGor1 - Orangutan Pongo pygmaeus abelii July 2007 ponAbe2 - Rhesus Macaca mulatta Jan. 2006 rheMac2 - Baboon Papio hamadryas Nov. 2008 papHam1 - Marmoset Callithrix jacchus June 2007 calJac1 - Tarsier Tarsius syrichta Aug. 2008 tarSyr1 - Mouse lemur Microcebus murinus Jul. 2007 micMur1 - Bushbaby Otolemur garnettii Dec. 2006 otoGar1 - Tree shrew Tupaia belangeri Dec. 2006 tupBel1 - Mouse Mus musculus July 2007 mm9 - Rat Rattus norvegicus Nov. 2004 rn4 - Kangaroo rat Dipodomys ordii Jul. 2008 dipOrd1 - Guinea Pig Cavia porcellus Feb. 2008 cavPor3 - Squirrel Spermophilus tridecemlineatus Feb. 2008 speTri1 - Rabbit Oryctolagus cuniculus Apr. 2009 oryCun2 - Pika Ochotona princeps Jul. 2008 ochPri2 - Alpaca Vicugna pacos Jul. 2008 vicPac1 - Dolphin Tursiops truncatus Feb. 2008 turTru1 - Cow Bos taurus Oct. 2007 bosTau4 - Horse Equus caballus Sep. 2007 equCab2 - Cat Felis catus Mar. 2006 felCat3 - Dog Canis lupus familiaris May 2005 canFam2 - Microbat Myotis lucifugus Mar. 2006 myoLuc1 - Megabat Pteropus vampyrus Jul. 2008 pteVam1 - Hedgehog Erinaceus europaeus June 2006 eriEur1 - Shrew Sorex araneus June 2006 sorAra1 - Elephant Loxodonta africana Jul. 2009 loxAfr3 - Rock hyrax Procavia capensis Jul. 2008 proCap1 - Tenrec Echinops telfairi July 2005 echTel1 - Armadillo Dasypus novemcinctus Jul. 2008 dasNov2 - Sloth Choloepus hoffmanni Jul. 2008 choHof1 - Wallaby Macropus eugenii Nov. 2007 macEug1 - Opossum Monodelphis domestica Oct. 2006 monDom5 - Platypus Ornithorhynchus anatinus Mar. 2007 ornAna1 - Chicken Gallus gallus May 2006 galGal3 - Zebra finch Taeniopygia guttata Jul. 2008 taeGut1 - Lizard Anolis carolinensis Feb. 2007 anoCar1 - X. tropicalis Xenopus tropicalis Aug. 2005 xenTro2 - Tetraodon Tetraodon nigroviridis Mar. 2007 tetNig2 - Fugu Takifugu rubripes Oct. 2004 fr2 - Stickleback Gasterosteus aculeatus Feb. 2006 gasAcu1 - Medaka Oryzias latipes Oct. 2005 oryLat2 - Zebrafish Danio rerio Dec. 2008 danRer6 - Lamprey Petromyzon marinus Mar. 2007 petMar1
position_score hg19/scores/phastCons46_primates 0 8 14.02 GB ## phastCons46way primates This score is from: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/phastCons46way/README.txt This directory contains compressed phastCons scores for multiple alignments of 45 vertebrate genomes to the human genome, plus an alternate set of scores for the primates subset of species in the alignments, and an alternate set of scores for the placental mammal subset of species in the alignments. For a description of the phastCons fixed step wiggle data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html The multiple alignments and methods description are at: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/multiz46way/ For a description of the phastCons data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html Assemblies used in these alignments: - Human Homo sapiens Feb. 2009 hg19/GRCh37 - Chimp Pan troglodytes Mar. 2006 panTro2 - Gorilla Gorilla gorilla gorilla Oct. 2008 gorGor1 - Orangutan Pongo pygmaeus abelii July 2007 ponAbe2 - Rhesus Macaca mulatta Jan. 2006 rheMac2 - Baboon Papio hamadryas Nov. 2008 papHam1 - Marmoset Callithrix jacchus June 2007 calJac1 - Tarsier Tarsius syrichta Aug. 2008 tarSyr1 - Mouse lemur Microcebus murinus Jul. 2007 micMur1 - Bushbaby Otolemur garnettii Dec. 2006 otoGar1 - Tree shrew Tupaia belangeri Dec. 2006 tupBel1 - Mouse Mus musculus July 2007 mm9 - Rat Rattus norvegicus Nov. 2004 rn4 - Kangaroo rat Dipodomys ordii Jul. 2008 dipOrd1 - Guinea Pig Cavia porcellus Feb. 2008 cavPor3 - Squirrel Spermophilus tridecemlineatus Feb. 2008 speTri1 - Rabbit Oryctolagus cuniculus Apr. 2009 oryCun2 - Pika Ochotona princeps Jul. 2008 ochPri2 - Alpaca Vicugna pacos Jul. 2008 vicPac1 - Dolphin Tursiops truncatus Feb. 2008 turTru1 - Cow Bos taurus Oct. 2007 bosTau4 - Horse Equus caballus Sep. 2007 equCab2 - Cat Felis catus Mar. 2006 felCat3 - Dog Canis lupus familiaris May 2005 canFam2 - Microbat Myotis lucifugus Mar. 2006 myoLuc1 - Megabat Pteropus vampyrus Jul. 2008 pteVam1 - Hedgehog Erinaceus europaeus June 2006 eriEur1 - Shrew Sorex araneus June 2006 sorAra1 - Elephant Loxodonta africana Jul. 2009 loxAfr3 - Rock hyrax Procavia capensis Jul. 2008 proCap1 - Tenrec Echinops telfairi July 2005 echTel1 - Armadillo Dasypus novemcinctus Jul. 2008 dasNov2 - Sloth Choloepus hoffmanni Jul. 2008 choHof1 - Wallaby Macropus eugenii Nov. 2007 macEug1 - Opossum Monodelphis domestica Oct. 2006 monDom5 - Platypus Ornithorhynchus anatinus Mar. 2007 ornAna1 - Chicken Gallus gallus May 2006 galGal3 - Zebra finch Taeniopygia guttata Jul. 2008 taeGut1 - Lizard Anolis carolinensis Feb. 2007 anoCar1 - X. tropicalis Xenopus tropicalis Aug. 2005 xenTro2 - Tetraodon Tetraodon nigroviridis Mar. 2007 tetNig2 - Fugu Takifugu rubripes Oct. 2004 fr2 - Stickleback Gasterosteus aculeatus Feb. 2006 gasAcu1 - Medaka Oryzias latipes Oct. 2005 oryLat2 - Zebrafish Danio rerio Dec. 2008 danRer6 - Lamprey Petromyzon marinus Mar. 2007 petMar1
position_score hg19/scores/phastCons46_vertebrates 0 8 10.81 GB ## phastCons46way vertebrates This score is from: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/phastCons46way/README.txt This directory contains compressed phastCons scores for multiple alignments of 45 vertebrate genomes to the human genome, plus an alternate set of scores for the primates subset of species in the alignments, and an alternate set of scores for the placental mammal subset of species in the alignments. For a description of the phastCons fixed step wiggle data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html The multiple alignments and methods description are at: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/multiz46way/ For a description of the phastCons data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html Assemblies used in these alignments: - Human Homo sapiens Feb. 2009 hg19/GRCh37 - Chimp Pan troglodytes Mar. 2006 panTro2 - Gorilla Gorilla gorilla gorilla Oct. 2008 gorGor1 - Orangutan Pongo pygmaeus abelii July 2007 ponAbe2 - Rhesus Macaca mulatta Jan. 2006 rheMac2 - Baboon Papio hamadryas Nov. 2008 papHam1 - Marmoset Callithrix jacchus June 2007 calJac1 - Tarsier Tarsius syrichta Aug. 2008 tarSyr1 - Mouse lemur Microcebus murinus Jul. 2007 micMur1 - Bushbaby Otolemur garnettii Dec. 2006 otoGar1 - Tree shrew Tupaia belangeri Dec. 2006 tupBel1 - Mouse Mus musculus July 2007 mm9 - Rat Rattus norvegicus Nov. 2004 rn4 - Kangaroo rat Dipodomys ordii Jul. 2008 dipOrd1 - Guinea Pig Cavia porcellus Feb. 2008 cavPor3 - Squirrel Spermophilus tridecemlineatus Feb. 2008 speTri1 - Rabbit Oryctolagus cuniculus Apr. 2009 oryCun2 - Pika Ochotona princeps Jul. 2008 ochPri2 - Alpaca Vicugna pacos Jul. 2008 vicPac1 - Dolphin Tursiops truncatus Feb. 2008 turTru1 - Cow Bos taurus Oct. 2007 bosTau4 - Horse Equus caballus Sep. 2007 equCab2 - Cat Felis catus Mar. 2006 felCat3 - Dog Canis lupus familiaris May 2005 canFam2 - Microbat Myotis lucifugus Mar. 2006 myoLuc1 - Megabat Pteropus vampyrus Jul. 2008 pteVam1 - Hedgehog Erinaceus europaeus June 2006 eriEur1 - Shrew Sorex araneus June 2006 sorAra1 - Elephant Loxodonta africana Jul. 2009 loxAfr3 - Rock hyrax Procavia capensis Jul. 2008 proCap1 - Tenrec Echinops telfairi July 2005 echTel1 - Armadillo Dasypus novemcinctus Jul. 2008 dasNov2 - Sloth Choloepus hoffmanni Jul. 2008 choHof1 - Wallaby Macropus eugenii Nov. 2007 macEug1 - Opossum Monodelphis domestica Oct. 2006 monDom5 - Platypus Ornithorhynchus anatinus Mar. 2007 ornAna1 - Chicken Gallus gallus May 2006 galGal3 - Zebra finch Taeniopygia guttata Jul. 2008 taeGut1 - Lizard Anolis carolinensis Feb. 2007 anoCar1 - X. tropicalis Xenopus tropicalis Aug. 2005 xenTro2 - Tetraodon Tetraodon nigroviridis Mar. 2007 tetNig2 - Fugu Takifugu rubripes Oct. 2004 fr2 - Stickleback Gasterosteus aculeatus Feb. 2006 gasAcu1 - Medaka Oryzias latipes Oct. 2005 oryLat2 - Zebrafish Danio rerio Dec. 2008 danRer6 - Lamprey Petromyzon marinus Mar. 2007 petMar1
position_score hg19/scores/phyloP46_placentals 0 8 14.62 GB ## phyloP46way placentals This file is from: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/phyloP46way/README.txt This directory contains conservation scoring by phyloP (phylogenetic p-values) from the PHAST package (http://compgen.bscb.cornell.edu/phast/) for multiple alignments of 45 vertebrate genomes to the human genome, plus alternate sets of scores for the primate species and the placental mammal species in the alignments. The phastCons data can be found at: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phastCons46way/ The multiple alignments and methods description are at: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/multiz46way/ For more information about this data, see the track description for the Conservation track: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=cons46way Assemblies used in these alignments: - Human Homo sapiens Feb. 2009 hg19/GRCh37 - Chimp Pan troglodytes Mar. 2006 panTro2 - Gorilla Gorilla gorilla gorilla Oct. 2008 gorGor1 - Orangutan Pongo pygmaeus abelii July 2007 ponAbe2 - Rhesus Macaca mulatta Jan. 2006 rheMac2 - Baboon Papio hamadryas Nov. 2008 papHam1 - Marmoset Callithrix jacchus June 2007 calJac1 - Tarsier Tarsius syrichta Aug. 2008 tarSyr1 - Mouse lemur Microcebus murinus Jul. 2007 micMur1 - Bushbaby Otolemur garnettii Dec. 2006 otoGar1 - Tree shrew Tupaia belangeri Dec. 2006 tupBel1 - Mouse Mus musculus July 2007 mm9 - Rat Rattus norvegicus Nov. 2004 rn4 - Kangaroo rat Dipodomys ordii Jul. 2008 dipOrd1 - Guinea Pig Cavia porcellus Feb. 2008 cavPor3 - Squirrel Spermophilus tridecemlineatus Feb. 2008 speTri1 - Rabbit Oryctolagus cuniculus Apr. 2009 oryCun2 - Pika Ochotona princeps Jul. 2008 ochPri2 - Alpaca Vicugna pacos Jul. 2008 vicPac1 - Dolphin Tursiops truncatus Feb. 2008 turTru1 - Cow Bos taurus Oct. 2007 bosTau4 - Horse Equus caballus Sep. 2007 equCab2 - Cat Felis catus Mar. 2006 felCat3 - Dog Canis lupus familiaris May 2005 canFam2 - Microbat Myotis lucifugus Mar. 2006 myoLuc1 - Megabat Pteropus vampyrus Jul. 2008 pteVam1 - Hedgehog Erinaceus europaeus June 2006 eriEur1 - Shrew Sorex araneus June 2006 sorAra1 - Elephant Loxodonta africana Jul. 2009 loxAfr3 - Rock hyrax Procavia capensis Jul. 2008 proCap1 - Tenrec Echinops telfairi July 2005 echTel1 - Armadillo Dasypus novemcinctus Jul. 2008 dasNov2 - Sloth Choloepus hoffmanni Jul. 2008 choHof1 - Wallaby Macropus eugenii Nov. 2007 macEug1 - Opossum Monodelphis domestica Oct. 2006 monDom5 - Platypus Ornithorhynchus anatinus Mar. 2007 ornAna1 - Chicken Gallus gallus May 2006 galGal3 - Zebra finch Taeniopygia guttata Jul. 2008 taeGut1 - Lizard Anolis carolinensis Feb. 2007 anoCar1 - X. tropicalis Xenopus tropicalis Aug. 2005 xenTro2 - Tetraodon Tetraodon nigroviridis Mar. 2007 tetNig2 - Fugu Takifugu rubripes Oct. 2004 fr2 - Stickleback Gasterosteus aculeatus Feb. 2006 gasAcu1 - Medaka Oryzias latipes Oct. 2005 oryLat2 - Zebrafish Danio rerio Dec. 2008 danRer6 - Lamprey Petromyzon marinus Mar. 2007 petMar1
position_score hg19/scores/phyloP46_primates 0 8 10.81 GB ## phyloP46way primates This file is from: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/phyloP46way/README.txt This directory contains conservation scoring by phyloP (phylogenetic p-values) from the PHAST package (http://compgen.bscb.cornell.edu/phast/) for multiple alignments of 45 vertebrate genomes to the human genome, plus alternate sets of scores for the primate species and the placental mammal species in the alignments. The phastCons data can be found at: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phastCons46way/ The multiple alignments and methods description are at: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/multiz46way/ For more information about this data, see the track description for the Conservation track: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=cons46way Assemblies used in these alignments: - Human Homo sapiens Feb. 2009 hg19/GRCh37 - Chimp Pan troglodytes Mar. 2006 panTro2 - Gorilla Gorilla gorilla gorilla Oct. 2008 gorGor1 - Orangutan Pongo pygmaeus abelii July 2007 ponAbe2 - Rhesus Macaca mulatta Jan. 2006 rheMac2 - Baboon Papio hamadryas Nov. 2008 papHam1 - Marmoset Callithrix jacchus June 2007 calJac1 - Tarsier Tarsius syrichta Aug. 2008 tarSyr1 - Mouse lemur Microcebus murinus Jul. 2007 micMur1 - Bushbaby Otolemur garnettii Dec. 2006 otoGar1 - Tree shrew Tupaia belangeri Dec. 2006 tupBel1 - Mouse Mus musculus July 2007 mm9 - Rat Rattus norvegicus Nov. 2004 rn4 - Kangaroo rat Dipodomys ordii Jul. 2008 dipOrd1 - Guinea Pig Cavia porcellus Feb. 2008 cavPor3 - Squirrel Spermophilus tridecemlineatus Feb. 2008 speTri1 - Rabbit Oryctolagus cuniculus Apr. 2009 oryCun2 - Pika Ochotona princeps Jul. 2008 ochPri2 - Alpaca Vicugna pacos Jul. 2008 vicPac1 - Dolphin Tursiops truncatus Feb. 2008 turTru1 - Cow Bos taurus Oct. 2007 bosTau4 - Horse Equus caballus Sep. 2007 equCab2 - Cat Felis catus Mar. 2006 felCat3 - Dog Canis lupus familiaris May 2005 canFam2 - Microbat Myotis lucifugus Mar. 2006 myoLuc1 - Megabat Pteropus vampyrus Jul. 2008 pteVam1 - Hedgehog Erinaceus europaeus June 2006 eriEur1 - Shrew Sorex araneus June 2006 sorAra1 - Elephant Loxodonta africana Jul. 2009 loxAfr3 - Rock hyrax Procavia capensis Jul. 2008 proCap1 - Tenrec Echinops telfairi July 2005 echTel1 - Armadillo Dasypus novemcinctus Jul. 2008 dasNov2 - Sloth Choloepus hoffmanni Jul. 2008 choHof1 - Wallaby Macropus eugenii Nov. 2007 macEug1 - Opossum Monodelphis domestica Oct. 2006 monDom5 - Platypus Ornithorhynchus anatinus Mar. 2007 ornAna1 - Chicken Gallus gallus May 2006 galGal3 - Zebra finch Taeniopygia guttata Jul. 2008 taeGut1 - Lizard Anolis carolinensis Feb. 2007 anoCar1 - X. tropicalis Xenopus tropicalis Aug. 2005 xenTro2 - Tetraodon Tetraodon nigroviridis Mar. 2007 tetNig2 - Fugu Takifugu rubripes Oct. 2004 fr2 - Stickleback Gasterosteus aculeatus Feb. 2006 gasAcu1 - Medaka Oryzias latipes Oct. 2005 oryLat2 - Zebrafish Danio rerio Dec. 2008 danRer6 - Lamprey Petromyzon marinus Mar. 2007 petMar1
position_score hg19/scores/phyloP46_vertebrates 0 8 14.72 GB ## phyloP46way vertebrates This file is from: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/phyloP46way/README.txt This directory contains conservation scoring by phyloP (phylogenetic p-values) from the PHAST package (http://compgen.bscb.cornell.edu/phast/) for multiple alignments of 45 vertebrate genomes to the human genome, plus alternate sets of scores for the primate species and the placental mammal species in the alignments. The phastCons data can be found at: http://hgdownload.cse.ucsc.edu/goldenPath/hg19/phastCons46way/ The multiple alignments and methods description are at: http://hgdownload.soe.ucsc.edu/goldenPath/hg19/multiz46way/ For more information about this data, see the track description for the Conservation track: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=cons46way Assemblies used in these alignments: - Human Homo sapiens Feb. 2009 hg19/GRCh37 - Chimp Pan troglodytes Mar. 2006 panTro2 - Gorilla Gorilla gorilla gorilla Oct. 2008 gorGor1 - Orangutan Pongo pygmaeus abelii July 2007 ponAbe2 - Rhesus Macaca mulatta Jan. 2006 rheMac2 - Baboon Papio hamadryas Nov. 2008 papHam1 - Marmoset Callithrix jacchus June 2007 calJac1 - Tarsier Tarsius syrichta Aug. 2008 tarSyr1 - Mouse lemur Microcebus murinus Jul. 2007 micMur1 - Bushbaby Otolemur garnettii Dec. 2006 otoGar1 - Tree shrew Tupaia belangeri Dec. 2006 tupBel1 - Mouse Mus musculus July 2007 mm9 - Rat Rattus norvegicus Nov. 2004 rn4 - Kangaroo rat Dipodomys ordii Jul. 2008 dipOrd1 - Guinea Pig Cavia porcellus Feb. 2008 cavPor3 - Squirrel Spermophilus tridecemlineatus Feb. 2008 speTri1 - Rabbit Oryctolagus cuniculus Apr. 2009 oryCun2 - Pika Ochotona princeps Jul. 2008 ochPri2 - Alpaca Vicugna pacos Jul. 2008 vicPac1 - Dolphin Tursiops truncatus Feb. 2008 turTru1 - Cow Bos taurus Oct. 2007 bosTau4 - Horse Equus caballus Sep. 2007 equCab2 - Cat Felis catus Mar. 2006 felCat3 - Dog Canis lupus familiaris May 2005 canFam2 - Microbat Myotis lucifugus Mar. 2006 myoLuc1 - Megabat Pteropus vampyrus Jul. 2008 pteVam1 - Hedgehog Erinaceus europaeus June 2006 eriEur1 - Shrew Sorex araneus June 2006 sorAra1 - Elephant Loxodonta africana Jul. 2009 loxAfr3 - Rock hyrax Procavia capensis Jul. 2008 proCap1 - Tenrec Echinops telfairi July 2005 echTel1 - Armadillo Dasypus novemcinctus Jul. 2008 dasNov2 - Sloth Choloepus hoffmanni Jul. 2008 choHof1 - Wallaby Macropus eugenii Nov. 2007 macEug1 - Opossum Monodelphis domestica Oct. 2006 monDom5 - Platypus Ornithorhynchus anatinus Mar. 2007 ornAna1 - Chicken Gallus gallus May 2006 galGal3 - Zebra finch Taeniopygia guttata Jul. 2008 taeGut1 - Lizard Anolis carolinensis Feb. 2007 anoCar1 - X. tropicalis Xenopus tropicalis Aug. 2005 xenTro2 - Tetraodon Tetraodon nigroviridis Mar. 2007 tetNig2 - Fugu Takifugu rubripes Oct. 2004 fr2 - Stickleback Gasterosteus aculeatus Feb. 2006 gasAcu1 - Medaka Oryzias latipes Oct. 2005 oryLat2 - Zebrafish Danio rerio Dec. 2008 danRer6 - Lamprey Petromyzon marinus Mar. 2007 petMar1
allele_score hg19/variant_frequencies/gnomAD_v2.1.1/exomes 0 32 959.5 MB ## gnomAD exomes v2.1.1 Original gnomAD exomes v2.1.1 is downloaded on October 19, 2020.
allele_score hg19/variant_frequencies/gnomAD_v2.1.1/genomes 0 31 12.27 GB ## gnomAD genomes v2.1.1 liftover Original gnomAD genomes v2.1.1 liftover is downloaded on October 19, 2020 from https://gnomad.broadinstitute.org/. tabix -s 1 -b 2 -e 2 -f gnomad..r2.1.1.extract.tsv.gz
gene_models hg38/gene_models/refGene_v20170601 0 5 5.42 MB ## refSeq gene models for HG38 from 20170601
gene_models hg38/gene_models/refSeq_v20200330 0 5 4.15 MB ## refSeq gene models for HG38 from 2020-03 Default gene models used by GPF for HG38.
genome hg38/genomes/GRCh38-hg38 0 3375 3.04 GB ## HG38 Reference Genome Default HG38 reference genome used by GPF
np_score hg38/scores/CADD_v1.4 0 18 79.42 GB ## CADD GRCh38-v1.4 TODO
np_score hg38/scores/CADD_v1.6 0 13 80.65 GB ## CADD GRCh38-v1.6 TODO
allele_score hg38/scores/clinvar_20221105 0 44 115.57 MB ClinVar resource downloaded on 2022-11-05. Chromosome names are remapped to have `chr` prefix. ClinVar is a freely accessible, public archive of reports of the relationships among human variations and phenotypes, with supporting evidence. ClinVar thus facilitates access to and communication about the relationships asserted between human variation and observed health status, and the history of that interpretation. ClinVar processes submissions reporting variants found in patient samples, assertions made regarding their clinical significance, information about the submitter, and other supporting data. The alleles described in submissions are mapped to reference sequences, and reported according to the HGVS standard. ClinVar then presents the data for interactive users as well as those wishing to use ClinVar in daily workflows and other local applications. ClinVar works in collaboration with interested organizations to meet the needs of the medical genetics community as efficiently and effectively as possible
position_score hg38/scores/phastCons100way 0 8 10.15 GB ## phastConst100way This file is from: http://hgdownload.cse.ucsc.edu/goldenPath/hg38/phastCons100way/README.txt This score contains compressed phastCons scores for multiple alignments of 99 vertebrate genomes to the human genome. For a description of the phastCons fixed step wiggle data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html Assemblies used in these alignments: == Primate subset == Human Homo sapiens Dec 2013 GRCh38/hg38 Reference species Chimp Pan troglodytes Feb 2011 CSAC 2.1.4/panTro4 Syntenic net Gorilla Gorilla gorilla gorilla May 2011 gorGor3.1/gorGor3 Reciprocal best net Orangutan Pongo pygmaeus abelii July 2007 WUGSC 2.0.2/ponAbe2 Reciprocal best net Gibbon Nomascus leucogenys Oct 2012 GGSC Nleu3.0/nomLeu3 Syntenic net Rhesus Macaca mulatta Oct 2010 BGI CR_1.0/rheMac3 Syntenic net Crab-eating macaque Macaca fascicularis Jun 2013 Macaca_fascicularis_5.0/macFas5 Syntenic net Baboon Papio hamadryas Mar 2012 Baylor Panu_2.0/papAnu2 Reciprocal best net Green monkey Chlorocebus sabaeus Mar 2014 Chlorocebus_sabeus 1.1/chlSab2 Syntenic net Marmoset Callithrix jacchus Mar 2009 WUGSC 3.2/calJac3 Syntenic net Squirrel monkey Saimiri boliviensis Oct 2011 Broad/saiBol1 Syntenic net Bushbaby Otolemur garnettii Mar 2011 Broad/otoGar3 Syntenic net == Euarchontoglires subset == Chinese tree shrew Tupaia chinensis Jan 2013 TupChi_1.0/tupChi1 Syntenic net Squirrel Spermophilus tridecemlineatus Nov 2011 Broad/speTri2 Syntenic net Lesser Egyptian jerboa Jaculus jaculus May 2012 JacJac1.0/jacJac1 Syntenic net Prairie vole Microtus ochrogaster Oct 2012 MicOch1.0/micOch1 Syntenic net Chinese hamster Cricetulus griseus Jul 2013 C_griseus_v1.0/criGri1 Syntenic net Golden hamster Mesocricetus auratus Mar 2013 MesAur1.0/mesAur1 Syntenic net Mouse Mus musculus Dec 2011 GRCm38/mm10 Syntenic net Rat Rattus norvegicus Jul 2014 RGSC 6.0/rn6 Syntenic net Naked mole-rat Heterocephalus glaber Jan 2012 Broad HetGla_female_1.0/hetGla2 Syntenic net Guinea pig Cavia porcellus Feb 2008 Broad/cavPor3 Syntenic net Chinchilla Chinchilla lanigera May 2012 ChiLan1.0/chiLan1 Syntenic net Brush-tailed rat Octodon degus Apr 2012 OctDeg1.0/octDeg1 Syntenic net Rabbit Oryctolagus cuniculus Apr 2009 Broad/oryCun2 Syntenic net Pika Ochotona princeps May 2012 OchPri3.0/ochPri3 Syntenic net == Laurasiatheria subset == Pig Sus scrofa Aug 2011 SGSC Sscrofa10.2/susScr3 Syntenic net Alpaca Vicugna pacos Mar 2013 Vicugna_pacos-2.0.1/vicPac2 Syntenic net Bactrian camel Camelus ferus Dec 2011 CB1/camFer1 Syntenic net Dolphin Tursiops truncatus Oct 2011 Baylor Ttru_1.4/turTru2 Reciprocal best net Killer whale Orcinus orca Jan 2013 Oorc_1.1/orcOrc1 Syntenic net Tibetan antelope Pantholops hodgsonii May 2013 PHO1.0/panHod1 Syntenic net Cow Bos taurus Jun 2014 UMD_3.1.1/bosTau8 Syntenic net Sheep Ovis aries Aug 2012 ISGC Oar_v3.1/oviAri3 Syntenic net Domestic goat Capra hircus May 2012 CHIR_1.0/capHir1 Syntenic net Horse Equus caballus Sep 2007 Broad/equCab2 Syntenic net White rhinoceros Ceratotherium simum May 2012 CerSimSim1.0/cerSim1 Syntenic net Cat Felis catus Nov 2014 ICGSC Felis_catus 8.0/felCat8 Syntenic net Dog Canis lupus familiaris Sep 2011 Broad CanFam3.1/canFam3 Syntenic net Ferret Mustela putorius furo Apr 2011 MusPutFur1.0/musFur1 Syntenic net Panda Ailuropoda melanoleuca Dec 2009 BGI-Shenzhen 1.0/ailMel1 Syntenic net Pacific walrus Odobenus rosmarus divergens Jan 2013 Oros_1.0/odoRosDiv1 Syntenic net Weddell seal Leptonychotes weddellii Mar 2013 LepWed1.0/lepWed1 Reciprocal best net Black flying-fox Pteropus alecto Aug 2012 ASM32557v1/pteAle1 Syntenic net Megabat Pteropus vampyrus Jul 2008 Broad/pteVam1 Reciprocal best net David's myotis bat Myotis davidii Aug 2012 ASM32734v1/myoDav1 Syntenic net Microbat Myotis lucifugus Jul 2010 Broad Institute Myoluc2.0/myoLuc2 Syntenic net Big brown bat Eptesicus fuscus Jul 2012 EptFus1.0/eptFus1 Syntenic net Hedgehog Erinaceus europaeus May 2012 EriEur2.0/eriEur2 Syntenic net Shrew Sorex araneus Aug 2008 Broad/sorAra2 Syntenic net Star-nosed mole Condylura cristata Mar 2012 ConCri1.0/conCri1 Syntenic net == Afrotheria subset == Elephant Loxodonta africana Jul 2009 Broad/loxAfr3 Syntenic net Cape elephant shrew Elephantulus edwardii Aug 2012 EleEdw1.0/eleEdw1 Syntenic net Manatee Trichechus manatus latirostris Oct 2011 Broad v1.0/triMan1 Syntenic net Cape golden mole Chrysochloris asiatica Aug 2012 ChrAsi1.0/chrAsi1 Syntenic net Tenrec Echinops telfairi Nov 2012 Broad/echTel2 Syntenic net Aardvark Orycteropus afer afer May 2012 OryAfe1.0/oryAfe1 Syntenic net == Mammal subset == Armadillo Dasypus novemcinctus Dec 2011 Baylor/dasNov3 Syntenic net Opossum Monodelphis domestica Oct 2006 Broad/monDom5 Net Tasmanian devil Sarcophilus harrisii Feb 2011 WTSI Devil_ref v7.0/sarHar1 Net Wallaby Macropus eugenii Sep 2009 TWGS Meug_1.1/macEug2 Reciprocal best net Platypus Ornithorhynchus anatinus Mar 2007 WUGSC 5.0.1/ornAna1 Reciprocal best net == Aves subset == Saker falcon Falco cherrug Feb 2013 F_cherrug_v1.0/falChe1 Net Peregrine falcon Falco peregrinus Feb 2013 F_peregrinus_v1.0/falPer1 Net Collared flycatcher Ficedula albicollis Jun 2013 FicAlb1.5/ficAlb2 Net White-throated sparrow Zonotrichia albicollis Apr 2013 ASM38545v1/zonAlb1 Net Medium ground finch Geospiza fortis Apr 2012 GeoFor_1.0/geoFor1 Net Zebra finch Taeniopygia guttata Feb 2013 WashU taeGut324/taeGut2 Net Tibetan ground jay Pseudopodoces humilis Jan 2013 PseHum1.0/pseHum1 Net Budgerigar Melopsittacus undulatus Sep 2011 WUSTL v6.3/melUnd1 Net Parrot Amazona vittata Jan 2013 AV1/amaVit1 Net Scarlet macaw Ara macao Jun 2013 SMACv1.1/araMac1 Net Rock pigeon Columba livia Feb 2013 Cliv_1.0/colLiv1 Net Mallard duck Anas platyrhynchos Apr 2013 BGI_duck_1.0/anaPla1 Net Chicken Gallus gallus Nov 2011 ICGSC Gallus_gallus-4.0/galGal4 Net Turkey Meleagris gallopavo Dec 2009 TGC Turkey_2.01/melGal1 Net == Sarcopterygii subset == American alligator Alligator mississippiensis Aug 2012 allMis0.2/allMis1 Net Green seaturtle Chelonia mydas Mar 2013 CheMyd_1.0/cheMyd1 Net Painted turtle Chrysemys picta bellii Mar 2014 v3.0.3/chrPic2 Net Chinese softshell turtle Pelodiscus sinensis Oct 2011 PelSin_1.0/pelSin1 Net Spiny softshell turtle Apalone spinifera May 2013 ASM38561v1/apaSpi1 Net Lizard Anolis carolinensis May 2010 Broad AnoCar2.0/anoCar2 Net X. tropicalis Xenopus tropicalis Sep 2012 JGI 7.0/xenTro7 Net Coelacanth Latimeria chalumnae Aug 2011 Broad/latCha1 Net == Fish subset == Tetraodon Tetraodon nigroviridis Mar 2007 Genoscope 8.0/tetNig2 Net Fugu Takifugu rubripes Oct 2011 FUGU5/fr3 Net Yellowbelly pufferfish Takifugu flavidus May 2013 version 1 of Takifugu flavidus genome/takFla1 Net Nile tilapia Oreochromis niloticus Jan 2011 Broad oreNil1.1/oreNil2 Net Princess of Burundi Neolamprologus brichardi May 2011 NeoBri1.0/neoBri1 Net Burton's mouthbreeder Haplochromis burtoni Oct 2011 AstBur1.0/hapBur1 Net Zebra mbuna Maylandia zebra Mar 2012 MetZeb1.1/mayZeb1 Net Pundamilia nyererei Pundamilia nyererei Oct 2011 PunNye1.0/punNye1 Net Medaka Oryzias latipes Oct 2005 NIG/UT MEDAKA1/oryLat2 Net Southern platyfish Xiphophorus maculatus Jan 2012 Xiphophorus_maculatus-4.4.2/xipMac1 Net Stickleback Gasterosteus aculeatus Feb 2006 Broad/gasAcu1 Net Atlantic cod Gadus morhua May 2010 Genofisk GadMor_May2010/gadMor1 Net Zebrafish Danio rerio Sep 2014 Zv10/danRer10 Net Mexican tetra (cavefish) Astyanax mexicanus Apr 2013 Astyanax_mexicanus-1.0.2/astMex1 Net Spotted gar Lepisosteus oculatus Dec 2011 LepOcu1/lepOcu1 Net Lamprey Petromyzon marinus Sep 2010 WUGSC 7.0/petMar2 Net
position_score hg38/scores/phastCons20way 0 8 13.6 GB ## phastCons20way This file is from: http://hgdownload.cse.ucsc.edu/goldenPath/hg38/phastCons20way/README.txt This score contains compressed phastCons scores for multiple alignments of 19 genome sequences to the human genome. For a description of the phastCons fixed step wiggle data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html The multiple alignments and methods description are at: http://hgdownload.cse.ucsc.edu/goldenPath/hg38/multiz20way/ For more information about this data, see the track description for the Conservation track: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=tarSyr2&g=cons20way Assemblies used in these alignments: (alignment type) Human - Homo sapiens Dec. 2013 (GRCh38/hg38) reference Baboon - Papio anubis Mar. 2012 (Baylor Panu_2.0/papAnu2) syntenic Bushbaby - Otolemur garnettii Mar. 2011 (Broad/otoGar3) reciprocal best Bonobo - Pan paniscus May. 2012 (Max-Planck/panPan1) reciprocal best Chimp - Pan troglodytes Feb. 2011 (CSAC 2.1.4/panTro4) syntenic Crab-eating macaque - Macaca fascicularis Jun 2013 (Macaca_fascicularis_5.0/macFas5) syntenic Gibbon - Nomascus leucogenys Oct. 2012 (GGSC Nleu3.0/nomLeu3) syntenic Golden snub-nosed monkey - Rhinopithecus roxellana Oct. 2014 (Rrox_v1/rhiRox1) reciprocal best Gorilla - Gorilla gorilla gorilla May 2011 (gorGor3.1/gorGor3) reciprocal best Green monkey - Chlorocebus sabaeus Mar. 2014 (Chlorocebus_sabeus 1.1/chlSab2) syntenic Marmoset - Callithrix jacchus Mar. 2009 (WUGSC 3.2/calJac3) syntenic Mouse lemur - Microcebus murinus Jul. 2007 (Broad/micMur1) reciprocal best Orangutan - Pongo pygmaeus abelii Jul. 2007 (WUGSC 2.0.2/ponAbe2) syntenic Proboscis monkey - Nasalis larvatus Nov. 2014 (Charlie1.0/nasLar1) reciprocal best Rhesus - Macaca mulatta Oct. 2010 (BGI CR_1.0/rheMac3) syntenic Squirrel monkey - Saimiri boliviensis Oct. 2011 (Broad/saiBol1) reciprocal best Tarsier - Tarsius syrichta Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2) reciprocal best Tree shrew - Tupaia belangeri Dec. 2006 (Broad/tupBel1) reciprocal best Mouse - Mus musculus Dec. 2011 (GRCm38/mm10) syntenic Dog - Canis lupus familiaris Sep. 2011 (Broad CanFam3.1/canFam3) syntenic
position_score hg38/scores/phastCons30way 0 8 12.97 GB ## phastCons30way This file is from: http://hgdownload.cse.ucsc.edu/goldenPath/hg38/phastCons30way/README.txt This score contains compressed phastCons scores for multiple alignments of 29 genome sequences to the human genome. For a description of the phastCons fixed step wiggle data file format, see: http://genome.ucsc.edu/goldenPath/help/phastCons.html For more information about this data, see the track description for the Conservation track: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=tarSyr2&g=cons30way ----------------------------------------------------------------------------- Assemblies used in these alignments: (alignment type) Human - Homo sapiens Dec. 2013 (GRCh38/hg38) (reference) Angolan colobus - Colobus angolensis palliatus Mar. 2015 (Cang.pa_1.0/colAng1) (syntenic) Armadillo - Dasypus novemcinctus Dec. 2011 (Baylor/dasNov3) (syntenic) Baboon - Papio anubis Feb. 2013 (Baylor Panu_2.0/papAnu3) (reciprocal best) Black lemur - Eulemur macaco Aug. 2015 (Emacaco_refEf_BWA_oneround/eulMac1) (reciprocal best) Black snub-nosed monkey - Rhinopithecus bieti Aug. 2016 (ASM169854v1/rhiBie1) (reciprocal best) Bonobo - Pan paniscus Aug. 2015 (MPI-EVA panpan1.1/panPan2) (syntenic) Bushbaby - Otolemur garnettii Mar. 2011 (Broad/otoGar3) (syntenic) Chimp - Pan troglodytes May 2016 (Pan_tro 3.0/panTro5) (syntenic) Coquerel's sifaka - Propithecus coquereli Mar. 2015 (Pcoq_1.0/proCoq1) (syntenic) Crab-eating macaque - Macaca fascicularis Jun. 2013 (Macaca_fascicularis_5.0/macFas5) (syntenic) Dog - Canis lupus familiaris Sep. 2011 (Broad CanFam3.1/canFam3) (syntenic) Drill - Mandrillus leucophaeus Mar. 2015 (Mleu.le_1.0/manLeu1) (syntenic) Gibbon - Nomascus leucogenys Oct. 2012 (GGSC Nleu3.0/nomLeu3) (syntenic) Golden snub-nosed monkey - Rhinopithecus roxellana Oct. 2014 (Rrox_v1/rhiRox1) (reciprocal best) Gorilla - Gorilla gorilla gorilla Mar. 2016 (GSMRT3/gorGor5) (syntenic) Green monkey - Chlorocebus sabaeus Mar. 2014 (Chlorocebus_sabeus 1.1/chlSab2) (syntenic) Ma's night monkey - Aotus nancymaae Jun. 2017 (Anan_2.0/aotNan1) (syntenic) Marmoset - Callithrix jacchus March 2009 (WUGSC 3.2/calJac3) (syntenic) Mouse - Mus musculus Dec. 2011 (GRCm38/mm10) (syntenic) Mouse lemur - Microcebus murinus Feb. 2017 (Mmur_3.0/micMur3) (syntenic) Orangutan - Pongo pygmaeus abelii July 2007 (WUGSC 2.0.2/ponAbe2) (reciprocal best) Pig-tailed macaque - Macaca nemestrina Mar. 2015 (Mnem_1.0/macNem1) (syntenic) Proboscis monkey - Nasalis larvatus Nov. 2014 (Charlie1.0/nasLar1) (reciprocal best) Rhesus - Macaca mulatta Nov. 2015 (BCM Mmul_8.0.1/rheMac8) (syntenic) Sclater's lemur - Eulemur flavifrons Aug. 2015 (Eflavifronsk33QCA/eulFla1) (reciprocal best) Sooty mangabey - Cercocebus atys Mar. 2015 (Caty_1.0/cerAty1) (syntenic) Squirrel monkey - Saimiri boliviensis Oct. 2011 (Broad/saiBol1) (syntenic) Tarsier - Tarsius syrichta Sep. 2013 (Tarsius_syrichta-2.0.1/tarSyr2) (reciprocal best) White-faced sapajou - Cebus capucinus imitator Apr. 2016 (Cebus_imitator-1.0/cebCap1) (syntenic)
position_score hg38/scores/phastCons7way 0 11 14.64 GB ## phastConst7way Downloaded from http://hgdownload.cse.ucsc.edu/goldenPath/hg38/phastCons7way/ ``` Assemblies used in these alignments: (alignment type) Human - Homo sapiens Dec. 2013 (GRCh38/hg38) reference Chimp - Pan troglodytes Feb. 2011 (GSAC 2.1.4/panTro4) syntenic Rhesus - Macaca mulatta Oct. 2010 (BGI CR_1.0/rheMac3) syntenic Dog - Canis lupus familiaris Sep. 2011 (Broad/canFam3) syntenic Mouse - Mus musculus Dec. 2011 (GRCm38/mm10) syntenic Rat - Rattus norvegicus Mar. 2012 (RGSC Rnor 5.0/rn5) syntenic Opossum - Monodelphis domestica Oct. 2006 (Broad/monDom5) net ```
position_score hg38/scores/phyloP100way 0 8 16.1 GB ## phyloP100way TODO
position_score hg38/scores/phyloP20way 0 8 14.56 GB ## phyloP20way TODO
position_score hg38/scores/phyloP30way 0 8 14.72 GB ## phyloP30way TODO
position_score hg38/scores/phyloP7way 0 8 12.54 GB ## phyloP7way TODO
allele_score hg38/variant_frequencies/SSC_WG38_CSHL_2380 0 12 783.72 MB TODO exported from SFARI_SSC_WGS_CSHL using `gpf_validation_data/data_hg38/exports/SFARI_SSC_WGS_CSHL_frequency` scripts
allele_score hg38/variant_frequencies/gnomAD_v2.1.1_liftover/exomes 0 35 928.31 MB ## gnomAD exomes v2.1.1 liftover Original gnomAD exomes v2.1.1 liftover is downloaded on October 19, 2020.
allele_score hg38/variant_frequencies/gnomAD_v2.1.1_liftover/genomes 0 35 11.53 GB ## gnomAD genomes v2.1.1 liftover Original gnomAD genomes v2.1.1 liftover is downloaded on October 19, 2020 from https://gnomad.broadinstitute.org/. tabix -s 1 -b 2 -e 2 -f gnomad..r2.1.1.extract.tsv.gz
allele_score hg38/variant_frequencies/gnomAD_v3/genomes 0 18 17.64 GB ## gnomAD genomes v3.0 Original gnomAD genomes v3.0 is downloaded on October 17, 2020 from https://gnomad.broadinstitute.org/. tabix -s 1 -b 2 -e 2 -f gnomad.genomes.r3.0.extract.tsv.gz
liftover_chain liftover/hg19ToHg38 0 6 450.19 KB ## Liftover Chain Hg19 to Hg38
liftover_chain liftover/hg38ToHg19 0 6 2.4 MB