v1.0.0

1.0.0 (2025-02-05)

Features

• actually run full workflow in GitHub Actions CI (18680e2)
• add group definitions in config.yaml (e098627)
• add initial qc steps (2340870)
• add working illumina simulation by sliding window approach, add nanosim via wrapper (c3ba388)
• create samples.tsv and units.tsv (d7268d5)
• extend config to specify target coverage per-group and per-circle (84eb01d)
• generate coverage output for qc (973cd97)
• rules and configuration, working up until circle creation (4451d20)
• use personal access token to enable GitHub Actions runs on release-please PRs (#3) (1c50e03)

Bug Fixes

• also define MODEL in exactly one place (317ee10)
• define mean_nuc variables in one place, for reusing them later (b98269d)
• do read simulations per circle (and cov), then merge circles into group sample files (9fa8d94)
• enforce ci runs in main directory (db03093)
• include / document crazy memory requirements of nanosim (dac951f)
• lookup in input file syntax (88c4d6b)
• nanopore mean read length determination (lognormal distribution and parameter specification in nanosim are unintuitive to me) (fc46a3c)
• release-please token name (#4) (2b2398d)
• remove unused test.fa file (#2) (d7b5631)
• scripts paths after linting update (0ae7529)
• small samples.tsv and units.tsv generation fixes (cd99761)
• use minimap2 for mapping instead of bwa-mem2, especially important for long read data (162ff28)