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## Feature request
### Tool(s) or class(es) involved
src/main/java/org/broadinstitute/hellbender/tools/walkers/rnaseq/SplitNCigarReads.java
### Description
Modification requested.
When …
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Hi,
I think `bcftools csq` `v1.1[7,9]` is terribly broken in its predictions as it infers the remaining two nucleotides (to fill up a codon) from the reference sequence instead of parsing the real …
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Hi I found the hifiasm will purge assembly when use default -l parameter, which got the same hifiasm.p_ctg.fasta as "-l 2". And when I use default parameter to assembly, and the use 'purge_dups' pur…
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Hi Peter,
I am opening a separate issue for this. I have a region which is encoding a protein, have `ref.fasta` and `ref.gff3` for this region. I prepended fake START codon and appended fake STOP c…
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A new branch of graphaligner has haplotype-aware alignment which should help with regions/repeats where one haplotype has a gap while the other does not, stealing mappings. It's also possible in can h…
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Hi @al2na, I wanted to inquire if MethylKit package can be used to run Differential methylation analysis for methylation call data obtained from hifi reads.
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Hi
I am having problems getting Panache to run.
I installed Docker and Docker compose and then ran bash ./start.sh
I get the following error:
```
## Populating apt-get cache...
+ apt-get…
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Consider:
- extracting all reads aligning to chrM
- filtering reads with primary/supp alignments elsewhere (NUMTs)
- realign with an aligner aware of circular references ([graphmap](https://github.…
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### Description of the bug
Hi,
I always get wfmash killed
### Command used and terminal output
```console
conda activate samtools
cat ../genomes/ChinaLab/NbeHZ1_genome_1.0.fa ../geno…
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I am using Adegenet 2.1.3 on R version 3.6.0 on x86_64-redhat-linux-gnu through Rstudio server. I am new to github so I apologize if this is formatted incorrectly.
I have noticed that the the tab()…