nf-core/exoseq

Issues

• Difference of pipelines

  #40 opened 5 years ago by kokyriakidis
  2

• Make CRAM default alignment format

  #14 opened 6 years ago by marchoeppner
  2

• Evaluate / Integrate Googles DeepVariant Caller?

  #10 opened 6 years ago by apeltzer
  2

• Prepare for nf-core sync

  #39 opened 6 years ago by sven1103
  0

• Include Switch to skip GenotypeGVCFs ?

  #32 opened 6 years ago by apeltzer
  0

• Switch to a CSV/TSV based input

  #18 opened 6 years ago by marchoeppner
  6

• Add HSMetrics

  #19 opened 6 years ago by marchoeppner
  0

• Enable multi-lane support

  #20 opened 6 years ago by marchoeppner
  4

• Split MultiQC output into fastq, library and sample

  #21 opened 6 years ago by marchoeppner
  0

• Singularity Support

  #35 opened 6 years ago by apeltzer
  0

• Add Travis Tests for ExoSeq

  #4 opened 6 years ago by apeltzer
  0

• Provide additional nf script for preparing Exome-Kit files

  #5 opened 6 years ago by apeltzer
  0

• Joint Discovery merge with main script

  #9 opened 6 years ago by apeltzer
  2

• Move FastQC into trimGalore

  #15 opened 6 years ago by marchoeppner
  2

• Get rid of $processName stuff and use withname syntax

  #28 opened 6 years ago by apeltzer
  1

• Update Dependencies

  #36 opened 6 years ago by apeltzer
  0

• Automatically check Reference Files are compatible

  #6 opened 6 years ago by apeltzer
  1

• Merge BWA and Samtools steps

  #16 opened 6 years ago by marchoeppner
  1

• Add AWSBatch Profiles

  #27 opened 6 years ago by apeltzer
  0

• Parallelization for Haplotypecaller

  #23 opened 6 years ago by veeravalli
  3

• Move kits to a base params definition, similar to igenomes

  #7 opened 6 years ago by apeltzer
  3

• Remove support for genome processing

  #17 opened 6 years ago by marchoeppner
  2

• Configuration - nest assemblies and references

  #22 opened 6 years ago by marchoeppner
  1

• Add a DOI on first release

  #26 opened 6 years ago by apeltzer
  0

• Collect software versions in a single process

  #8 opened 6 years ago by apeltzer
  0

• Support for mixed capture methods

  #3 opened 6 years ago by apeltzer
  0