bacpop / ska.rust

Split k-mer analysis – version 2
https://docs.rs/ska/latest/ska/
Apache License 2.0
56 stars 4 forks source link

Add more alignment filtering options #9

Closed johnlees closed 1 year ago

johnlees commented 1 year ago

Adds three types of filter for align, documentation and tests for these.

Also update docs with some small corrections

codecov[bot] commented 1 year ago

Codecov Report

Base: 82.62% // Head: 82.77% // Increases project coverage by +0.14% :tada:

Coverage data is based on head (0860a34) compared to base (89f77d7). Patch coverage: 87.27% of modified lines in pull request are covered.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## master #9 +/- ## ========================================== + Coverage 82.62% 82.77% +0.14% ========================================== Files 13 13 Lines 1318 1341 +23 Branches 205 212 +7 ========================================== + Hits 1089 1110 +21 + Misses 127 126 -1 - Partials 102 105 +3 ``` | [Impacted Files](https://codecov.io/gh/bacpop/ska.rust/pull/9?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bacpop) | Coverage Δ | | |---|---|---| | [src/cli.rs](https://codecov.io/gh/bacpop/ska.rust/pull/9?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bacpop#diff-c3JjL2NsaS5ycw==) | `66.11% <75.00%> (+1.25%)` | :arrow_up: | | [src/lib.rs](https://codecov.io/gh/bacpop/ska.rust/pull/9?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bacpop#diff-c3JjL2xpYi5ycw==) | `78.10% <77.77%> (+0.12%)` | :arrow_up: | | [src/merge\_ska\_array.rs](https://codecov.io/gh/bacpop/ska.rust/pull/9?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bacpop#diff-c3JjL21lcmdlX3NrYV9hcnJheS5ycw==) | `92.50% <96.15%> (-0.06%)` | :arrow_down: | | [src/ska\_dict/bit\_encoding.rs](https://codecov.io/gh/bacpop/ska.rust/pull/9?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bacpop#diff-c3JjL3NrYV9kaWN0L2JpdF9lbmNvZGluZy5ycw==) | `97.95% <100.00%> (+0.18%)` | :arrow_up: | Help us with your feedback. Take ten seconds to tell us [how you rate us](https://about.codecov.io/nps?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bacpop). Have a feature suggestion? [Share it here.](https://app.codecov.io/gh/feedback/?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bacpop)

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