v1.6.1

1.6.1 (2026-03-30)

Bug Fixes

• added missing star options, bump wrappers (df64f43)
• added star default options (a414cf6)
• bump all wrapper versions (7b39056)

v1.6.0

1.6.0 (2026-03-21)

Features

• update docs, CI workflows (cb4f792)
• update README and config schema (1549c34)

Bug Fixes

• update badges (d619663)
• update CI workflows (7c2bcc6)

v1.5.0

1.5.0 (2025-12-18)

Features

• enable apptainer deployment (f0198f6)
• enable apptainer deployment (138414b)

Bug Fixes

• chunks with default messaging turned off (0310f01)
• corrected dir for building Dockerfile (d5e752a)
• corrected dir for building Dockerfile (79933c2)
• paths to run wf in main dir (c643bfd)
• paths to run wf in main dir (7fecab2)
• update to apptainer workflow (7d991e9)
• update to apptainer workflow (1ba5983)
• use empty array instead of empty string for no input (927586d)

v1.4.2

1.4.2 (2025-11-19)

Bug Fixes

• minor fixes for next release (13a1e03)
• restrict number of variants for heatmaps (f08d201)

v1.4.1

1.4.1 (2025-09-25)

Bug Fixes

• minor issues, formatting (865e609)
• prevent rule from crashing when no variants were found at all (c7ec81c)
• removed phase attribute for exons and mRNAs (25fabe2)
• removed unnecessary rdata export (aa6a5d5)
• report chromosomes etc as tabs (029c1df)

v1.4.0

1.4.0 (2025-09-17)

Features

• added minimap2 as another mapper option (99e95d1)
• added new modules for mapping (82cacb3)
• added STAR as a mapper option (9dd4fa8)
• fix: added option to choose varaint caller to config (96f51d7)

Bug Fixes

• added missing argument input to get_genome (532afee)
• expose extra args in config (93d4500)
• minor changes config settings (aeeab0e)
• prevent report from failing when no variants were found + format (538c772)
• tolerate empty genome input (8f3d0cf)

v1.3.0

1.3.0 (2025-09-15)

Features

• added first draft of report for most important variants (5cf5150)
• added genome plots to report (c4acfb1)
• added rule to collect consensus variants (f883811)
• added SnpEff part 1 (52b4f1d)
• added SnpEff part 2 (59c2e69)
• more detailed plots for report (9cdc49a)
• various improvements to variant effect prediction + viz (103ada1)

Bug Fixes

• corrected urls to json schema (d9456d9)
• minor formatting (338d9ee)

v1.2.0

1.2.0 (2025-08-12)

Features

• added variant effect prediction module (9e9d940)
• added VEP for variant prediction (354548a)

Bug Fixes

• added missing documentation (b2156eb)
• added script to reformat GFF for VEP (6d19814)
• location of vep log file (9d5d7a8)
• make multiqc recognize vep output (a01343b)
• more changes to convert NCBI to ensemble GFF format (8a9a948)

v1.1.1

1.1.1 (2025-06-20)

Bug Fixes

• adjusted resource allocation (5e7d8a3)
• adjusted resource definitions (8667d70)
• bug setting cores dynamically, use static number (bbe6509)
• exposed parameters for some tools (068d30d)
• exposed parameters for some tools (55a0ac4)

v1.1.0

1.1.0 (2025-06-19)

Features

• added freebayes as second variant caller (d4d49b8)
• various improvements regarding input options, docs (fc2fa4d)

Bug Fixes

• added dag as workflow overview (24be9b4)
• explicit link to fasta index (5a7e895)
• removed unnecessary fastp_se rule (232a784)
• update dag (ce4c68c)
• works now seamless with paired and single end input (5844af8)