- MethylC-seq analyses now supports spike-ins
- fixed --keep parameter
- due to bashbone upgrade to v1.6.0
- updated yaml files (--from-history export)
- use condabin directory for shared binaries across envs
- BS mode: BAM tag and flag tweaks
- BAM rmdup with UMIs fixed
- better plots
- support for downloading technical SRA reads and by GSE accession
- misc improvements