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# 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
# Prepared against Ensembl gene build 94
---
attributes:
name: transcripts
version: 2018-10-10_92
recipe:
full:
recipe_type: bash
recipe_cmds:
- |
baseurl=https://s3.amazonaws.com/biodata/annotation/hg38-rnaseq-2018-10-10_92.tar.xz
wget -c -N --no-check-certificate $baseurl
xz -dc *-rnaseq-*.tar.xz | tar -xpf -
mv */rnaseq-* rnaseq
recipe_outfiles:
- rnaseq/ref-transcripts.bed
- rnaseq/ref-transcripts.dexseq.gff3
- rnaseq/ref-transcripts.fa
- rnaseq/ref-transcripts.genePred
- rnaseq/ref-transcripts.gtf
- rnaseq/ref-transcripts.gtf.db
- rnaseq/ref-transcripts-mask.gtf
- rnaseq/ref-transcripts.refFlat
- rnaseq/ref-transcripts-splicesites.txt
- rnaseq/rRNA.gtf
- rnaseq/rRNA.gtf.db
- rnaseq/rRNA.interval_list
- rnaseq/tx2gene.csv
- rnaseq/version.txt
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