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1.6.0

Adds example data used in publication.

1.5.1

  • Improve outputs when R2_R1 has been applied to ensure input fields are replicated "as is" in counts file
  • Add warning to indicate sgrna_strands is minimally implemented within the manifest and not applied in the processing (see #13)

1.5.0

  • Dual-guide count output is now same as single-guide
  • All count output files are compressed with gzip
  • Merging of count and statistics files implemented

1.4.1

Use classifications in the *.query_class.tsv.gz file.

1.4.0

  • Adds mean_count_per_guide statistic to all modes.
  • Correct bug in --boundary mode mapping (TinQ and QinT reversed).
  • dual-guide: expand classifications to handle multiple guide-pair hits when one end unique.
  • dual-guide: Adds the *.query_class.tsv.gz file for use in debugging (see #4).

1.3.0

  • dual-guide: added library header item to deal with reversed read order when comparing against sgRNA.
  • dual-guide: handled data multiplication issue in CRAM outputs, quicker.

1.2.1

Handle change to how bgzip data is reported by magic decode.

1.2.0

Add --unique option to long-read mode. Exits as soon as unique read sequence counts are generated. Data is added to outputs when run without this flag.

## 1.1.1

Correct license text, referencing child package

## 1.1.0

  • First public release
  • Includes dual-guide and long-read (single-guide, suitable for SGE)

1.0.0

  • Exact flag dropped in preference for deducing from lack of rules
  • Allow substring matching fall through to cope with length mismatch
  • Add --no-alignment option

0.1.1

  • Correction in dockerfile
  • Internally handle rescaling phred scores when input is fastq

0.1.0

  • Uses pySSA 0.3.0
  • Initial release for user interaction