Comments (4)
dpryan79
commented on July 22, 2024
I'm unable to reproduce this locally. Could it be that the fasta file you're providing to MethylDackel is in a different order than what appears in the BAM file header?
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bwlang
commented on July 22, 2024
Hmmm i will check
…On Mar 13, 2017 4:53 AM, "Devon Ryan" ***@***.***> wrote:
I'm unable to reproduce this locally. Could it be that the fasta file
you're providing to MethylDackel is in a different order than what appears
in the BAM file header?
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bwlang
commented on July 22, 2024
Sorry I lost track of this... do you consider it a bug if the program segfaults?
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dpryan79
commented on July 22, 2024
If it's not due to something like the wrong fasta file being used then yes. Even then, though, if you have a good example then the this can be reopened so that a sane error message can be returned instead.
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Related Issues (20)
- Genome browsing from MethylDackel bedGraphCpG file
- per-fragment methylation HOT 2
- mbias result is different between bismark and bwameth output HOT 1
- CURL_OPENSSL conflict with samtools HOT 3
- Installation failure: "bigWig.h: No such file or directory" HOT 1
- Clarification on definition of "unmethylated C" HOT 1
- Coverage of C sites HOT 1
- mbias HOT 1
- Does indel effect the methylation calling or C context determination HOT 1
- Positions in cytosine_report did not match the regions in providing bed file
- about M-bias HOT 1
- Could not repeat a CpG extraction with the same reference file and its index
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- How to index genome file for MethylDackel? HOT 1
- Confused regarding CTOT, CTOB. Are there suggested values? HOT 3
- Issue running MethylDackel extract in parallel mode using minConversionEfficiency
- Question about minimum coverage
- Different CpG calls when using different regions of inclusion for Methyldackel extract
- Alignment trimming for Soft Clip reads?
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