v1.2.0

What's Changed

• chore: remove unused imports and variables by @gp201 in #28
• build(deps): bump conda-incubator/setup-miniconda from 3 to 4 by @dependabot[bot] in #29
• feat(utils): Ensure reference first in alignment by @gp201 in #31

Full Changelog: v1.1.5...v1.2.0

v1.1.5

What's Changed

• fix: Enhance logging and add allele consistency checks by @gp201 in #22

Full Changelog: v1.1.4...v1.1.5

v1.1.4

What's Changed

• fix: accumulate counts when combining mutations by @gp201 in #19

Full Changelog: v1.1.3...v1.1.4

v1.1.3

What's Changed

• feat: Warn if samples are missing in FASTA by @gp201 in #17
• Bump version to 1.1.3 by @gp201 in #18

Full Changelog: v1.1.2...v1.1.3

v1.1.2

What's Changed

• docs: Update README.md to add doi and link to bioconda page by @gp201 in #10
• Update DOI link in the README by @gp201 in #11
• build(deps): bump actions/checkout from 4 to 5 by @dependabot[bot] in #12
• build(deps): bump actions/setup-python from 5 to 6 by @dependabot[bot] in #13
• build(deps): bump actions/checkout from 5 to 6 by @dependabot[bot] in #14
• fix: fix metadata format and sequence processing by @gp201 in #15

New Contributors

• @dependabot[bot] made their first contribution in #12

Full Changelog: v1.1.1...v1.1.2

v1.1.1

What's Changed

• feat: add new command line options for tree format, usher arguments, threads, matutils overlap, prefix, and plot chunk size by @gp201 in #8
• feat: add debug flag to process_and_reroot_lineages function by @gp201 in #9

Full Changelog: v1.1.0...v1.1.1

v1.1.0

What's Changed

• feat: update barcode output format to PDF and enhance plotting with seaborn and matplotlib by @gp201 in #7

Full Changelog: v1.0.0...v1.1.0

v1.0.0

First Release

Full Changelog: https://github.com/andersen-lab/BarcodeForge/commits/v1.0.0