| hg19-gaps-ucsc-v1 | 1 | Assembly gaps from UCSC in bed format | Mar 25, 2025 | — |
| hg19-pfam-domains-ucsc-v1 | 1 | Pfam domain annotation in bed12 format. (From UCSC) | Mar 25, 2025 | — |
| grch37-chromsizes-ggd-v1 | 1 | Chromosome lengths for GRCh37 | Mar 25, 2025 | — |
| hg19-chromsizes-ggd-v1 | 1 | Chromosome lengths for hg19 | Mar 25, 2025 | — |
| hg38-chromsizes-ggd-v1 | 1 | Chromosome lengths for hg38 | Mar 25, 2025 | — |
| grch38-chromsizes-ggd-v1 | 1 | Chromosome lengths for GRCh38 | Mar 25, 2025 | — |
| hg19-cpg-islands-ucsc-v1 | 1 | cpg islands from UCSC in bed format | Mar 25, 2025 | — |
| grch38-chrom-mapping-ucsc2ensembl-ncbi-v1 | 1 | A tab delimited file containing scaffolding ids that map hg38 UCSC scaffoldings to GRCh38 Ensembl(GenBank) scaffoldings. This is specific to patch 13 of the GRCh38 Human genome build. (1st column = UCSC ids, 2nd column = Ensembl ids) | Mar 25, 2025 | — |
| grch37-autosomal-dominant-genes-berg-v1 | 1 | CDS region genomic coordinates, along with the compliment coordinates, for OMIM disease genes (as of June 2011) deemed to follow autosomal dominant inheritance. (Assembled by Macarthur Lab). Berg et al, 2013: (https://www.ncbi.nlm.nih.gov/pubmed/22995991). | Mar 25, 2025 | — |
| hg19-chrom-mapping-ensembl2ucsc-ncbi-v1 | 1 | A tab delimited file containing scaffolding ids that maps GRCh37 Ensembl(GenBank) scaffoldings to hg19 UCSC scaffoldings. This is specific to patch 13 of the GRCh37 Human genome build. (1st column = Ensembl ids, 2nd column = UCSC ids) | Mar 25, 2025 | — |
| hg19-chrom-mapping-refseq2ucsc-ncbi-v1 | 1 | A tab delimited file containing scaffolding ids that maps GRCh37 RefSeq scaffoldings to hg19 UCSC scaffoldings. This is specific to patch 13 of the GRCh37 Human genome build. (1st column = RefSeq ids, 2nd column = UCSC ids) | Mar 25, 2025 | — |
| hg38-pli-scores-exac-v1 | 1 | The probability of being loss-of-function intolerant (pLI) by gene scores from ExAC. See paper at: https://www.nature.com/articles/nature19057. Pseudo-liftover: Updated coordinates based on transcript ids that map between GRCh37 and GRCh38. If unable to map transcript id, the gene symbol is mapped between GRCh37 and GRCh38. If neither the transcript id or gene symbol map between the two builds the record is removed. Remapped from Ensembl GRCh38 to UCSC hg38 | Mar 25, 2025 | — |
| meta-recipe-geo-accession-geo-v1 | 1 | A meta-recipe for the Gene Expression Omnibus (GEO) database from NCBI. This meta-recipe contains the instructions for accessing GEO data using GEO Accession IDs. GEO Datasets (GDS), GEO Platforms (GPL), GEO Series (GSE), and GEO Samples (GSM) are all accessible through this meta-recipe. Files downloaded for each type are: (GDS) SOFT files. (GPL) SOFT files and ANNOT files if they exist. (GSE) SOFT file and MATRIX files if they exist. (GSM) The main table file as a .txt file. Additionally, for all 4 types, all supplemental files are downloaded if they exist. Once installed, GEO ID specific recipes will contain ID specific info, such as a summary of the data and a url to the GEO Accession ID specific page. This info can be accessed using 'ggd pkg-info'. To install simply add the '--id' flag with the desired GEO Accession ID when running 'ggd install'. Additional info about GEO can be found at http://www.ncbi.nlm.nih.gov/geo | Mar 25, 2025 | — |
| grch37-chrom-mapping-ucsc2ensembl-ncbi-v1 | 1 | A tab delimited file containing scaffolding ids that maps hg19 UCSC scafoldings to GRCh37 Ensembl(GenBank) scaffoldings. This is specific to patch 13 of the GRCh37 Human genome build. (1st column = UCSC ids, 2nd column = Ensembl idss) | Mar 25, 2025 | — |
| grch37-gtf-ensembl-v1 | 1 | The GRCh37 gtf file from ensembl | Mar 25, 2025 | — |
| hg38-chrom-mapping-ensembl2ucsc-ncbi-v1 | 1 | A tab delimited file containing scaffolding ids that maps GRCh38 Ensembl(GenBank) scaffoldings to hg39 UCSC scaffoldings. This is specific to patch 13 of the GRCh38 Human genome build. (1st column = Ensembl ids, 2nd column = UCSC ids) | Mar 25, 2025 | — |
| grch38-reference-genome-ensembl-v1 | 1 | The GRCh38 reference genome from Ensembl. Release 95. Primary Assembly file | Mar 25, 2025 | — |
| grch37-reference-genome-ensembl-v1 | 1 | The GRCh37 reference genome from Ensembl. Release 75. Primary Assembly file | Mar 25, 2025 | — |
| grch38-gtf-ensembl-v1 | 1 | The GRCh38 gtf file from ensembl | Mar 25, 2025 | — |
| hg38-cpg-islands-ucsc-v1 | 1 | hg38 cpg islands from UCSC in bed format | Mar 25, 2025 | — |
| hg38-repeatmasker-ucsc-v1 | 1 | RepeatMasker track from UCSC in bed format | Mar 25, 2025 | — |
| hg19-microsatellites-ucsc-v1 | 1 | Microsatellites from UCSC | Mar 25, 2025 | — |
| hg38-gaps-ucsc-v1 | 1 | hg38 Assembly gaps from UCSC in bed format | Mar 25, 2025 | — |
| hg19-phastcons-ucsc-v1 | 1 | phastCons scores for MSA of 99 genomes to hg19 | Mar 25, 2025 | — |
| hg38-segmental-dups-ucsc-v1 | 1 | The hg38 segmental duplications (SuperDups) file from UCSC. That is, duplications of at least 1kb total sequence of non-repeatmasker sequence in bed format | Mar 25, 2025 | — |
