v1.16.0

What's Changed

• Update igv.js version in templates to 3.5.2
• Add parameter --merge-overlaps. If defined overlapping regions in bedpe features are merged and presented in a single locus view.

Full Changelog: v1.15.1...v1.16.0

v1.15.1

What's Changed

• Fix broken import statement #130

Full Changelog: v1.15.0...v1.15.1

v1.15.0

What's Changed

• Respect --exclude-flags 0 by @xunjieli in #121
• Fix typo in assignment of config options in report.py by @xunjieli in #124
• Remove dead code in feature.py by @xunjieli in #120
• Tabulator template for column header filter feature by @barslmn in #128
• Twobit by @jrobinso in #129

New Contributors

• @xunjieli made their first contribution in #121
• @barslmn made their first contribution in #128

Full Changelog: v1.14.0...v1.15.0

v1.14.0

• Update igv.js to v3.0.5

v1.12.0

What's Changed

• Bug fix - Using option --genome with "hg38" caused an error and prevented creation of a report.

Full Changelog: v1.10.0...v1.12.0

v1.10.0

What's Changed

• Extended support for structural variants

  • Large indels are now viewable (issue #100)
  • Info tags "CHR2" and "END" are now used to detect inter-chromosomal rearrangments

• Bug fix -- gff colors from column 9 not recognized (issue #99)

Full Changelog: v1.9.0...v1.10.0

1.9.1

What's Changed

• Bug fix -- BEDPE reports failed when including a tabix indexed VCF track (issue #76)

Full Changelog: v1.8.1...v1.9.0

1.9.0

What's Changed

• On column sort place missing (blank) values at bottom. by @brianjohnhaas in #91

• Fix layout problem affecting table horizontal scrollbar

Full Changelog: v1.8.1...v1.9.0

1.8.1

What's Changed

• fix bug in tsv header being retained as data row by @jethror1 in #89

New Contributors

• @jethror1 made their first contribution in #89

Full Changelog: v1.8.0...v1.8.1

1.8.0

What's Changed

• Add --title to variant html template by @juanesarango in #77
• New "fusion" report type to support Trinity CTAT fusion workflow
• New --no-embed option to use external URL for data files

New Contributors

• @juanesarango made their first contribution in #77

Full Changelog: v1.7.0...v1.8.0