RatesTools version 1.2.4

What's Changed

• Added BCFtools to sanityCheckLogs conda configuration

Full Changelog: v.1.2.3...v.1.2.4

RatesTools version 1.2.3

Updated default ReadPosRankSum filter settings

Full Changelog: v.1.2.2...v.1.2.3

RatesTools version 1.2.2

• Updated conda channels

RatesTools version 1.2.1

• Fixes bug in region filter bypass option

What's Changed

• Update README.md by @campanam in #80
• V1.2.1 dev by @campanam in #82

Full Changelog: v1.2.0...v1.2.1

RatesTools version 1.2.0

• Many bug fixes to dnm_summary_stats.rb and other portions of the pipeline
• Binomial confidence intervals
• Filtered mutational spectra and candidate DNM VCFs

What's Changed

• V1.2.0 dev by @campanam in #76
• Update ruby_r_scripts.md by @campanam in #77

Full Changelog: v1.1.2...v1.2.0

RatesTools verison 1.1.2

• Fixes bugs in calculating bootstrapped standard deviations
• Fixes a bug in calculating adjusted standard errors

RatesTools version 1.1.1

• Posthoc removal of clumped DNM candidates
• Recalculation of mutation rates and confidence intervals after removal of DNM clumps and overlapping DNMs between offspring

RatesTools version 1.1.0

• Trio phasing using WhatsHap

RatesTools version 1.0.0

• Major upgrade to Nextflow DSL2
• Additional controls permit bypassing parts of the pipeline
• Improved summary statistic output
• See documentation and changelog for details

RatesTools version 0.5.16

• Fixed bug that discarded the unfiltered site total for contigs where all sites were removed