ggd-alpha
by ggd-alpha (Organization)
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Packages
| Name | Latest Version | Summary | Updated | License |
|---|
| canfam3-dbsnp | 20140510 | — | Mar 25, 2025 | — |
| canfam3-transcripts | 2014.07.20 | Transcript, annotation and indices for RNA-seq analysis Prepared from Ensembl transcripts using: https://github.com/chapmanb/cloudbiolinux/blob/master/utils/prepare_tx_gff.py | Mar 25, 2025 | — |
| grch37-1000g_omni_snps | 2.5 | — | Mar 25, 2025 | — |
| grch37-1000g_snps | 2.8 | — | Mar 25, 2025 | — |
| grch37-ancestral | 20141010 | — | Mar 25, 2025 | — |
| grch37-battenberg | v3.20150610 | Battenberg CNV caller input data: https://github.com/cancerit/cgpBattenberg | Mar 25, 2025 | — |
| grch37-cosmic | 68 | — | Mar 25, 2025 | — |
| grch37-dbnsfp | 3.1c | — | Mar 25, 2025 | — |
| grch37-dbsnp | 138 | — | Mar 25, 2025 | — |
| grch37-dream-syn3 | 2014.08.04 | Truth sets from the DREAM genomic challenge 3 https://www.synapse.org/#!Synapse:syn312572/wiki/62018 Originally retrieved from https://www.synapse.org/#!Synapse:syn2177211 and prepared with this script: https://github.com/chapmanb/bcbio-nextgen/blob/master/scripts/utils/format_dream_truthset.py | Mar 25, 2025 | — |
| grch37-dream-syn4 | 2014.08.09 | Truth sets from the DREAM genomic challenge 4 https://www.synapse.org/#!Synapse:syn312572/wiki/62018 Originally retrieved from https://www.synapse.org/#!Synapse:syn2177211 and prepared with this script: https://github.com/chapmanb/bcbio-nextgen/blob/master/scripts/utils/format_dream_truthset.py | Mar 25, 2025 | — |
| grch37-ga4gh-problem-regions | 20151116 | GA4GH problematic region files: https://drive.google.com/folderview?id=0B7Ao1qqJJDHQUjVIN3liUUZNWjg&usp=sharing#list | Mar 25, 2025 | — |
| grch37-giab-na12878 | v2_19_1 | Truth sets from Genome in a Bottle for NA12878 -- http://genomeinabottle.org/ Removes mitochondrial chromosome to avoid comparisons there | Mar 25, 2025 | — |
| grch37-hapmap | 3.3 | — | Mar 25, 2025 | — |
| grch37-mig | 20150730 | Medically Interpretable Genes, compiled by Personalis: http://www.genomemedicine.com/content/pdf/s13073-015-0197-4.pdf | Mar 25, 2025 | — |
| grch37-mills_indels | 2.8 | — | Mar 25, 2025 | — |
| grch37-prioritize | 20160215 | Regions for prioritization: cancer - civic -- known cancer genes from the CIViC database - az300 -- list of 300 cancer genes of interest from AstraZeneca Oncology - az300-with-fusion -- az300 list plus known interacting fusions from FusionCatcher https://github.com/ndaniel/fusioncatcher/blob/master/bin/generate_known.py#L102 - az-cancer-panel -- az300 genes plus additional useful panel genes | Mar 25, 2025 | — |
| grch37-qsignature | 20140703 | — | Mar 25, 2025 | — |
| grch37-radar | 1 | RADAR RNA editing events: (http://www.stanford.edu/~gokulr/database/Human_AG_all_hg19_v2.txt) installs a BED file of the RADAR events, converted to GRCh37 chromosome coordinates | Mar 25, 2025 | — |
| grch37-radar-grch37 | 1 | RADAR RNA editing events: (http://www.stanford.edu/~gokulr/database/Human_AG_all_hg19_v2.txt) installs a BED file of the RADAR events, converted to GRCh37 chromosome coordinates | Mar 25, 2025 | — |
| grch37-reference-genome | 1 | — | Mar 25, 2025 | — |
| grch37-sequence | 37 | fasta sequence from 1kg | Mar 25, 2025 | — |
| grch37-srnaseq | 20160224 | small RNA seq annotation from different sources | Mar 25, 2025 | — |
| grch37-transcripts | 2015.12.01 | Transcript, annotation and indices for RNA-seq analysis Prepared from Ensembl transcripts using: https://github.com/chapmanb/cloudbiolinux/blob/master/utils/prepare_tx_gff.py | Mar 25, 2025 | — |
| hg19-1000g_omni_snps | 2.5 | — | Mar 25, 2025 | — |