Comments (7)
dpryan79
commented on July 22, 2024
FYI, this is now implemented in the implement31 branch. I'll get it merged in for the next release in a week or two.
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lutsik
commented on July 22, 2024
Hi Devon,
Many thanks! I will start testing right away.
Best regards,
Pavlo
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dpryan79
commented on July 22, 2024
Great! Let me know if I mucked something up :)
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dpryan79
commented on July 22, 2024
Sorry for the delay on this, I forgot all about it. This is now in the 0.2.0 release. As an aside, the package has now been renamed, so be aware of that when you're executing commands.
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lutsik
commented on July 22, 2024
Dear Devon,
Many thanks again for adding this feature. Would it be also possible to activate the respective flags for the generation and plotting of the M-bias metric? Currently there seems to be no straightforward way to check the effect.
Best regards,
Pavlo
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dpryan79
commented on July 22, 2024
Sure, great suggestion!
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dpryan79
commented on July 22, 2024
Sorry for the delay, this should now be implemented in version 0.3.0.
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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
- Mixed up reads within bam file
- 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?
- Can MethylDackel extract per-base methylation metrics for TAPS?
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