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Hey Ian,
This is just a thought. I realize that the smith-waterman to both haplotypes helps sort out alignment edge effects with indels, but does it do anything for SNPs? I realize that a nearby in…
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Hello,
Thank you for making this tool! I have been struggling with supernova assembly from 10x data due to big genome size (4Gb). Does physlr have any requirements in terms of computer resources f…
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Hello, I am testing Aquila on a bam file produced with longranger. I am struggling with this error that I can not adress during `Aquila_step1`.
```
Traceback (most recent call last):
File "/…
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### Description of feature
For Base QV, the information is under [Base pair accuracy (QV) estimate](https://static-content.springer.com/esm/art%3A10.1038%2Fs41586-021-03451-0/MediaObjects/41586_2021_…
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Some comments about uncertainty information:
> What about adding a uncertainty of 0.4 C (from the manufacture’s sheet) would also indicate the data quality.
>
> -- @petejan
> As a user of ADC…
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I am not sure if ema-bin-??? refers to something I should be replacing. When I try to run the ema align step I get the error:
error: file /home/metzgerm/EMA/ema-bin-??? could not be opened
The p…
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### Description of bug
Hi there.
I found two bugs.
1. When running MultiQC `v1.22.*`, the software file pattern `*_mqc_versions.(yml|yaml)` is not being recognised or the file is ignored by som…
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Hello, I'm seeking clarification on the new `haplotagphase` command. The command is described as phasing a vcf file using haplotagged BAM/CRAM files. However, the CLI docstring specifies that the BAM/…
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### Description of bug
I have tried custom content to plot heatmap in multiqc report based on some quality check criteria.
When input file is in same working directory, it is generating heatmap…
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### Description of bug
The documentation pages shows that hostile is supported. But the CLI tool seems to know nothing of it.
Here is the conda env I used to install.
```
name: multiqc
chan…