Merge development into master
- Jun 24, 2020
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van den Berg authoredRevert back to gmap 2014 12 23 See merge request !6
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- Jun 23, 2020
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van den Berg authored
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van den Berg authored
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- Jun 12, 2020
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van den Berg authored
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- Jun 03, 2020
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van den Berg authored
This tests the fix for #issue-11, which was resolved by a new upstream release of the gmap aligner. The same upstream release also fixes #issue-12.
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van den Berg authored
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van den Berg authored
- Upgrade pytest-workflow to version 1.4.0, which adds support for contains_regex. - Update test cases to match the values produced by the new version of gsnap. Use contains_regex to reduce the sensitivity of the test cases to small changes in values. - Change the MV4-11 FLT3 hotspot mutation test to a different variant. The previous variant was in a hard to map region, so it is unclear if it is an error when it could not be found.
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- May 18, 2020
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van den Berg authored
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- May 14, 2020
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van den Berg authored
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- May 13, 2020
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van den Berg authored
To simplify the test, we compare the expression of the relevant MECOM exon with the MECOM gene itself, and reduce the threshold to call overexpression in the config file. This way, we do not have to add additional read data to the repository.
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van den Berg authored
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- May 12, 2020
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van den Berg authored
This was requested by Hematology, since they use the amino acid changes to determine the clinical relevance of a mutation.
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- May 06, 2020
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van den Berg authored
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