transcripts.yaml

# 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