Comments (4)
standage
commented on September 8, 2024
https://github.com/mdshw5/simplesam?
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standage
commented on September 8, 2024
Moved to pip install from github for now, after next release should be easier to pip install from PyPI. See pysam-developers/pysam#379.
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standage
commented on September 8, 2024
The groundwork has been laid for introducing BAM support in khmer.
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standage
commented on September 8, 2024
The pysam library is now a soft dependency (as of #65). Kevlar will run fine without it, and kevlar dump will handle it gracefully with a useful error message if it is invoked without pysam installed.
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Related Issues (20)
- Bug with log-space transformation
- Command or script for inspecting ambiguous calls
- MemoryError HOT 3
- Execution failed due to high FPR in case HOT 4
- Failed tests HOT 8
- Dead links to tutorial files HOT 3
- Empty files produced by kevlar split cause crash of kevlar assemble HOT 3
- python 3.6 install - pytest failures - 26 failed, 347 passed (pytest 5.3.5?) HOT 5
- Tutorial: Error on running kevlar filter HOT 9
- Clarification - how to avoid high FPR HOT 3
- kevlar memory error HOT 2
- partition, node error HOT 3
- Controls for simlike HOT 2
- VCF Parsing Issue HOT 1
- Where is kevlar? HOT 3
- How to just get the Kmer?
- Kevlar novel multithreading HOT 2
- count_control error: estimated false positive rate is 0.385 (FPR too high, bailing out!!! HOT 5
- > 30,000 variants reported from trio-analysis with FPR 0.001? HOT 6
- Is kevlar able to detect duplications/repeat expansions and in general CNV? HOT 1
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