skchronicles/RNA-seek

Issues

• Update star alignment rules in single-end.smk

  #28 opened a year ago by skchronicles
  0

• Running the pipeline other than Biowulf

  #27 opened a year ago by erenada
  5

• MultiQC bug

  #26 opened 2 years ago by felloumi
  4

• Kraken database

  #23 opened 3 years ago by tovahmarkowitz
  0

• RNA-seek Documentation

  #21 opened 4 years ago by kopardev
  2

• Singularity cache

  #16 opened 4 years ago by kopardev
  1

• rNA QC report integration

  #17 opened 4 years ago by kopardev
  1

• GTF independence

  #15 opened 4 years ago by kopardev
  0

• SRA support

  #20 opened 4 years ago by kopardev
  1

• Possible Race Condition with s3 Remote files

  #13 opened 4 years ago by skchronicles
  0

• Docker image for main entry point RNA-seek

  #12 opened 4 years ago by skchronicles
  0

• AWS execution via Tibanna

  #11 opened 4 years ago by skchronicles
  0

• Download Inputs from SRA

  #9 opened 4 years ago by skchronicles
  1

• GATK4 RNA-seq short variant discovery (SNPs + Indels)

  #7 opened 4 years ago by skchronicles
  0

• rMATS

  #6 opened 4 years ago by skchronicles
  0

• Small curated input dataset for continuous integration github actions workflow

  #3 opened 4 years ago by kopardev
  2

• Using s3 bucket for resources

  #2 opened 4 years ago by kopardev
  5

• build to accept gz files

  #19 opened 4 years ago by kopardev
  0

• s3 location for common genome+annotation combinations

  #18 opened 4 years ago by kopardev
  1

• 2pass STAR mode

  #14 opened 4 years ago by kopardev
  1

• Build all references files on the fly

  #10 opened 4 years ago by skchronicles
  2

• Running STAR with GTF provided on the fly

  #1 opened 4 years ago by kopardev
  3

• Adding gene fusion caller Arriba

  #5 opened 4 years ago by skchronicles
  3

• Adding fastqvalidator

  #4 opened 4 years ago by kopardev
  1