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I used diamond for speeding up blastx alignment of .fasta file to hsa.pep.fasta from kobas.cbi.pku.edu.cn/download/, then I tried to use annotate.py to annotate, and this error message appears:
```
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I seem to be getting different p-values for the AU test results using IQTree vs. when I use [CONSEL](https://github.com/shimo-lab/consel). I ran the IQTree AU test using the command:
`iqtree -s in…
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`janitor.biology` could do with a `to_fasta` function, I think. The intent here would be to conveniently export a dataframe of sequences as a FASTA file, using one column as the fasta header.
straw…
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Dear developper,
I'm interested in estimating piN/piS for 6 populations of individuals. The individuals were sequenced separately in RAD-seq, the reads mapped on the reference genome and then the v…
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Hi all,
First of all thanks for all your work in DIA-NN, make our life much easier. I faced a problem with some Fasta files that I want to introduced to generate the libraries. My fasta files are pro…
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Hi All - having many jobs fail with this type of error, which seems to indicated perhaps something about a poorly formatted fasta file? One issue is that I can't seem to find the offending file `GCF_0…
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Hi, we recently downloaded the Pangenome assemblies in the AGC format, and we extracted individual assemblies in fasta format. We noticed that contig names do not match human chromosome names. Are we …
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Hi everyone,
I would like to use a list of gene ids to get FASTA formats of the proteins coded in those genes and the mRNA sequence without introns.
So far with this command I can get the protei…
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Improve checking of FASTA-formatted query files. Possibly allow lines starting with # as comment lines.
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Hello,
I am trying to use a variation genome graph to genotype SVs on more samples sequenced with short-reads, and I'm trying different avenues (see 1)graph from vcf + giraffe and 2) graph with pggb+…