SQANTI 5.3.0

This release include some new minor features, such as the inclusion of a Dockerfile of sqanti and a wrapper to execute all SQANTI steps at once. Also enhances compatibility for fastq.gz files in sqanti3_qc.py and a new sqanti tool, sqanti_reads.py!

Several bugfixes are corrected: Sqanti QC report is now more robust in absence of some categories of transcripts and transcripts with unknown strands are redirected to an external file to inform the user about possible problems. Full list of changes is below

What's Changed

• Sqanti reads by @carolinamonzo in #321
• Dockerfile by @Fabian-RY in #323
• Added compatibility for .gz compressed fasta/fastq isoforms to SQANTI3_QC by @Fabian-RY in #326
• Fixes report failing when some some structural categories (mainly FSM, ISM, NIC or NNIC) were missing by @Fabian-RY in #332
• Add NA replacement value for ratio_TSS column in ML Rescue by @aarzalluz in #330
• FIX: corrected unchecked existance of a variable in report when --skipORF is used by @Fabian-RY in #339
• FIX: transcripts without known strands (with '.' strand) are redirected by @Fabian-RY in #336
• Bugfix: corrected the sign in difference to TTS/TSS by @Fabian-RY and @alexpan00 in #337
• FIX: gtf.cds.gff is now created when --chunks options is used by @Fabian-RY in #341
• Sqanti3 wrapper available by @Fabian-RY in #344
• Fix: TSS and TTS now is corrected and documented by @Fabian-RY and @alexpan00 in #345
• Sqanti reads devel by @carolinamonzo in #356
• Fixing stuff for paper revision by @carolinamonzo in #358
• Sqanti reads devel updating environment by @carolinamonzo in #359

New Contributors

• @Fabian-RY made their first contribution in #323

Full Changelog: v5.2.2...v5.3.0