v0.2.3

What's Changed

• Do not manage strandness in bedtools operations for pangenome partitioning by @AndreaGuarracino in #31
• Avoid too short intervals in the partitions by @AndreaGuarracino in #32
• Introduce commands (impg query and impg stats) by @AndreaGuarracino in #33
• fix query transitive: correct range insertion by handling start and end values by @AndreaGuarracino in #35
• Add impg partition command by @AndreaGuarracino in #34
• Fix target id in PAF and BEDPE outputs by @AndreaGuarracino in #36
• Fix empty target ranges, refactoring and performance tweaks by @AndreaGuarracino in #37
• Merge overlapping/contiguous ranges to visit in query_transitive to strongly improve performance by @AndreaGuarracino in #38

Full Changelog: v0.2.2...v0.2.3

v0.2.2

What's Changed

• Fix condition for query_transitive by @AndreaGuarracino in #25
• avoid duplicates in query_transitive by @AndreaGuarracino in #26
• Fix BED format strandness by @AndreaGuarracino in #27
• do not explore the same ranges multiple times in query_transitive by @AndreaGuarracino in #28
• Pangenome partitioning by @AndreaGuarracino in #29
• Fix query_range length calculation so that it works for reversed queries too by @AndreaGuarracino in #30

Full Changelog: v0.2.1...v0.2.2

v0.2.1

What's Changed

• add bioconda badge by @AndreaGuarracino in #8
• Manage ranges in extracted sequences (subsequences) by @AndreaGuarracino in #13
• Ensure that target end <= target length by @AndreaGuarracino in #14
• Compare paf index timestamps by @bkille in #16
• Fix seq_index by @AndreaGuarracino in #20
• Add (updated) gap-compressed-identity and block-identity to PAF output by @AndreaGuarracino in #21
• Drop self range in PAF/BEDPE output by @AndreaGuarracino in #22
• Fix invalid results in output by @AndreaGuarracino in #23
• do not push wrong ranges in the stack by @AndreaGuarracino in #24

Full Changelog: v0.2.0...v0.2.1

v0.2.0

What's Changed

• Store cigar offsets in lightweight index by @bkille in #1
• Add bed input, bedpe output, and paf output by @AndreaGuarracino in #3
• manage 'NAME' column in BED, BEDPE and PAF, 'M' CIGAR operation, GitHub workflow, strandness by @AndreaGuarracino in #4
• Remove path from index by @bkille in #7
• Adjust also target ranges and make valid outputs by @AndreaGuarracino in #6

New Contributors

• @bkille made their first contribution in #1
• @AndreaGuarracino made their first contribution in #3

Full Changelog: https://github.com/pangenome/impg/commits/v0.2.0