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Merge pull request #922 from nakib103/update_gerp
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Update gerp in VCF config
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@dglemos
dglemos committed Dec 6, 2022
2 parents c93675b + 7c9b44a commit 033dc53
Showing 1 changed file with 50 additions and 50 deletions.
100 changes: 50 additions & 50 deletions modules/Bio/EnsEMBL/Variation/DBSQL/vcf_config.json
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Original file line number Diff line number Diff line change
Expand Up @@ -905,43 +905,43 @@
"filename_template": "https://ftp.ebi.ac.uk/pub/databases/eva/rs_releases/release_3/by_species/sander_lucioperca/GCA_008315115.1/GCA_008315115.1_current_ids.vcf.gz"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "bos_taurus",
"assembly": "ARS-UCD1.2",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.bos_taurus.ARS-UCD1.2.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.bos_taurus.ARS-UCD1.2.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "canis_lupus_familiaris",
"assembly": "ROS_Cfam_1.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.canis_lupus_familiaris.ROS_Cfam_1.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.canis_lupus_familiaris.ROS_Cfam_1.0.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "canis_lupus_familiarisboxer",
"assembly": "Dog10K_Boxer_Tasha",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.canis_lupus_familiarisboxer.Dog10K_Boxer_Tasha.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.canis_lupus_familiarisboxer.Dog10K_Boxer_Tasha.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "capra_hircus",
"assembly": "ARS1",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.capra_hircus.ARS1.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.capra_hircus.ARS1.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "chlorocebus_sabaeus",
"assembly": "ChlSab1.1",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.chlorocebus_sabaeus.ChlSab1.1.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.chlorocebus_sabaeus.ChlSab1.1.bw",
"annotation_type": "gerp"
},
{
Expand All @@ -953,19 +953,19 @@
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "equus_caballus",
"assembly": "EquCab3.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.equus_caballus.EquCab3.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.equus_caballus.EquCab3.0.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "felis_catus",
"assembly": "Felis_catus_9.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.felis_catus.Felis_catus_9.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.felis_catus.Felis_catus_9.0.bw",
"annotation_type": "gerp"
},
{
Expand All @@ -977,11 +977,11 @@
"annotation_type": "gerp"
},
{
"id": "58_amniotes.gerp_conservation_score",
"id": "65_amniotes.gerp_conservation_score",
"species": "gallus_gallus",
"assembly": "GRCg6a",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/58_amniotes.gerp_conservation_score/gerp_conservation_scores.gallus_gallus.GRCg6a.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/65_amniotes.gerp_conservation_score/gerp_conservation_scores.gallus_gallus.GRCg6a.bw",
"annotation_type": "gerp"
},
{
Expand All @@ -993,67 +993,67 @@
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "homo_sapiens",
"assembly": "GRCh38",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.homo_sapiens.GRCh38.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.homo_sapiens.GRCh38.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "macaca_fascicularis",
"assembly": "Macaca_fascicularis_6.0",
"type": "remote",
"filename_template": "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.macaca_fascicularis.Macaca_fascicularis_6.0.bw",
"filename_template": "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.macaca_fascicularis.Macaca_fascicularis_6.0.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "macaca_mulatta",
"assembly": "Mmul_10",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.macaca_mulatta.Mmul_10.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.macaca_mulatta.Mmul_10.bw",
"annotation_type": "gerp"
},
{
"id": "58_amniotes.gerp_conservation_score",
"id": "65_amniotes.gerp_conservation_score",
"species": "meleagris_gallopavo",
"assembly": "Turkey_5.1",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/58_amniotes.gerp_conservation_score/gerp_conservation_scores.meleagris_gallopavo.Turkey_5.1.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/65_amniotes.gerp_conservation_score/gerp_conservation_scores.meleagris_gallopavo.Turkey_5.1.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "microtus_ochrogaster",
"assembly": "MicOch1.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.microtus_ochrogaster.MicOch1.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.microtus_ochrogaster.MicOch1.0.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "mus_musculus",
"assembly": "GRCm39",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.mus_musculus.GRCm39.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.mus_musculus.GRCm39.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "neovison_vison",
"assembly": "NNQGG.v01",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.neovison_vison.NNQGG.v01.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.neovison_vison.NNQGG.v01.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "nomascus_leucogenys",
"assembly": "Nleu_3.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.nomascus_leucogenys.Nleu_3.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.nomascus_leucogenys.Nleu_3.0.bw",
"annotation_type": "gerp"
},
{
Expand All @@ -1065,35 +1065,35 @@
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "oryctolagus_cuniculus",
"assembly": "OryCun2.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.oryctolagus_cuniculus.OryCun2.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.oryctolagus_cuniculus.OryCun2.0.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "ovis_aries",
"assembly": "Oar_v3.1",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.ovis_aries.Oar_v3.1.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.ovis_aries.Oar_v3.1.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "ovis_aries_rambouillet",
"assembly": "Oar_rambouillet_v1.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.ovis_aries_rambouillet.Oar_rambouillet_v1.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.ovis_aries_rambouillet.Oar_rambouillet_v1.0.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "pan_troglodytes",
"assembly": "Pan_tro_3.0",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.pan_troglodytes.Pan_tro_3.0.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.pan_troglodytes.Pan_tro_3.0.bw",
"annotation_type": "gerp"
},
{
Expand All @@ -1105,43 +1105,43 @@
"annotation_type": "gerp"
},
{
"id": "58_amniotes.gerp_conservation_score",
"id": "65_amniotes.gerp_conservation_score",
"species": "parus_major",
"assembly": "Parus_major1.1",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/58_amniotes.gerp_conservation_score/gerp_conservation_scores.parus_major.Parus_major1.1.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/65_amniotes.gerp_conservation_score/gerp_conservation_scores.parus_major.Parus_major1.1.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "pongo_abelii",
"assembly": "Susie_PABv2",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.pongo_abelii.Susie_PABv2.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.pongo_abelii.Susie_PABv2.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "rattus_norvegicus",
"assembly": "mRatBN7.2",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.rattus_norvegicus.mRatBN7.2.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.rattus_norvegicus.mRatBN7.2.bw",
"annotation_type": "gerp"
},
{
"id": "91_mammals.gerp_conservation_score",
"id": "90_mammals.gerp_conservation_score",
"species": "sus_scrofa",
"assembly": "Sscrofa11.1",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/91_mammals.gerp_conservation_score/gerp_conservation_scores.sus_scrofa.Sscrofa11.1.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/90_mammals.gerp_conservation_score/gerp_conservation_scores.sus_scrofa.Sscrofa11.1.bw",
"annotation_type": "gerp"
},
{
"id": "58_amniotes.gerp_conservation_score",
"id": "65_amniotes.gerp_conservation_score",
"species": "taeniopygia_guttata",
"assembly": "bTaeGut1_v1.p",
"type": "remote",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/58_amniotes.gerp_conservation_score/gerp_conservation_scores.taeniopygia_guttata.bTaeGut1_v1.p.bw",
"filename_template" : "https://ftp.ensembl.org/pub/release-108/compara/conservation_scores/65_amniotes.gerp_conservation_score/gerp_conservation_scores.taeniopygia_guttata.bTaeGut1_v1.p.bw",
"annotation_type": "gerp"
},
{
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