Release v0.4.0 (ska lo)

This release adds the ska lo command for detection of nearby SNPs and indels.

What's Changed

• Added link & reference to the sandbox.bio tutorial. by @vrbouza in #88
• Covbuildmerge by @jhellewell14 in #89
• Skalo by @jhellewell14 in #86
• updated skalo with indel output by @rderelle in #91

New Contributors

• @vrbouza made their first contribution in #88
• @jhellewell14 made their first contribution in #89
• @rderelle made their first contribution in #91

Full Changelog: v0.3.11...v0.4.0

Release v0.3.11

What's Changed

• Better default filtering options for ska distance by @johnlees in #82

Full Changelog: v0.3.10...v0.3.11

Release v0.3.10

What's Changed

• ska delete upgrade by @johnlees in #80

Full Changelog: v0.3.9...v0.3.10

Release v0.3.9

What's Changed

• Fix for ska cov with low counts by @johnlees in #76

Full Changelog: v0.3.8...v0.3.9

Release v0.3.8

What's Changed

• Adding max frequence reads parameter by @apollis44 in #74
• Simplified proportion reads computation by @apollis44 in #75

New Contributors

• @apollis44 made their first contribution in #74

Full Changelog: v0.3.7...v0.3.8

Release v0.3.7

What's Changed

• Consistent method for dealing with ref bias in ska map by @johnlees in #70

Full Changelog: v0.3.6...v0.3.7

Release v0.3.6

What's Changed

• Fix double file prefix; update VCF parsing by @johnlees in #66

Full Changelog: v0.3.5...v0.3.6

Release v0.3.5

What's Changed

• Filter tweaks by @johnlees in #63

Full Changelog: v0.3.4...v0.3.5

Release v0.3.4

What's Changed

• 0.3.4 candidate -- final feature requests by @johnlees in #61

Full Changelog: v0.3.3...v0.3.4

Release v0.3.3

What's Changed

• Add optional output filename option -o to ska weed. by @tmaklin in #55
• Fix for ska delete by @johnlees in #58
• Fix for multi-contig references in map by @johnlees in #60

Full Changelog: v0.3.2...v0.3.3