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base repository: brentp/mosdepth
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base: v0.2.8
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head repository: brentp/mosdepth
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9
contributors
Commits on Feb 21, 2020
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stores average coverage (not per-base) for region (like goleft indexcov)
* regions and global dist should be different * cleanup of test output * missing : * adds upper limit to avoid overflowing the array (maybe should increase from 1000 buckets for targeted sequencing or chrM ) * updated doc for -b * fixes fuctional test of -b <digits> mode * moves doc to README
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Commits on Feb 25, 2020
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Commits on Mar 2, 2020
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Commits on Mar 25, 2020
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Commits on Apr 21, 2020
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Commits on May 2, 2020
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Commits on May 11, 2020
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from @danielecook requires changes to functional tests due to zcat differences on osx
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Commits on Jun 22, 2020
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Commits on Jul 24, 2020
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Commits on Sep 16, 2020
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Commits on Sep 29, 2020
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Commits on Nov 3, 2020
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Merge pull request #130 from NagaComBio/NagaComBio-readme-patch-1
Update README.md
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Commits on Nov 20, 2020
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Commits on May 24, 2021
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Merge pull request #145 from hyphaltip/master
small typo in wording 'noly' to 'only'
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Commits on Jul 19, 2021
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Commits on Feb 2, 2022
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allow specifying a custom index (via hts-nim)
use /path/to/bam##idx##/other-path/to/bam.index
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Commits on Mar 18, 2022
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Commits on May 1, 2022
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Commits on May 2, 2022
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Commits on Mar 8, 2023
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Merge pull request #196 from jethror1/master
Update Docker installation in README from v0.2.4 -> v0.3.3
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Commits on Mar 16, 2023
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Commits on Jun 23, 2023
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Commits on Sep 15, 2023
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Commits on Oct 6, 2023
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Commits on Nov 11, 2023
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fragment-length filtering (#214)
* Adds length filter in coverage * Adds min_len and max_len to CLI * tries isize instead of tlen * Passes min_len and max_len to coverage() * replaces template length with insert size in docs * Removes bad let * replaces fragment length with insert size in docs * Sets min_len default to -1 Otherwise, this PR might cause reads with insert size 0 to be excluded, which might be okay but is not the intended change I want to make * Adheres to argument naming standard ("-" not "_") * Updates argnames with "-frag-". Adds error when max < min. * Adds tests of fragment length filtering --------- Co-authored-by: Ludvig <ludvig@clin.au.dk>
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Commits on Nov 22, 2023
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Commits on Mar 20, 2024
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update binary to fix #224 by building with htslib v1.19.1
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Commits on Apr 11, 2024
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* Update Github Actions' versions and runners Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org> * Add a workaround for 38/d4-format#77 Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org> * Use dtolnay/rust-toolchain Github Action to install Rustc/Cargo Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org> * Do not fail fast the build matrix Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org> * Build with Nim 1.6.x and 2.x Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org> --------- Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>
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Commits on Apr 17, 2024
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