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Hello Daniel,
I have a question about the global alignment score of block aligner, is it metric (https://en.wikipedia.org/wiki/Metric_space)? Especially whether score (a, b) = score (b, a) for glob…
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### OS version
Arch 6.0.12
### Python version
3.10.1
### Pip version
22.3.1
### Guide link
https://setuptools.pypa.io/en/latest/userguide/datafiles.html
### Problem description
Switching from…
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@kkuret Hi:
I am trying the `peka` to performing motif identification from our in-house generated eCLIP-Seq in plants. I found `peka` is more suitable to peaks identified from CLIP-Seq (unlike those …
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Hello folks
Thanks for what looks like a very promising method. I'm attempting to create a PanRG from aligned genes from orthofinder across a ~30 sample pangenome (i.e. 30 annotated genome assembl…
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### Description of feature
Bracken needs as an input the read length. This is not consistently or always correctly reported in SRA meta-data so it's better to estimate the average read length. `fastp…
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BCALM2 does not always crash elegantly when the input fasta. For example,
```
>cat blin.fa
adfad
> bcalm -in blin.fa -kmer-size 3
BCALM 2, git commit e9ba83c
setting storage type to hdf5
HDF5-D…
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Hello,
I have a memory problem when trying to assemble my heterozygous plant genome.
I managed to get the haplotypes with 220G of memory and 32 CPUs but I can't produce the primary/alternative as…
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Hi,
I'm having issues with the MEME analysis for de novo motif finding.
Could you help me with what the issue is?
Thanks for the amazing tool!
[slurm-97220.out.txt](https://github.com/fl-yu/CUT-…
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I have been using m6Anet a lot and I get out that table with position, prob, kmer, etc. I have recently pulled out information on just one transcript (randomly chosen) and when I look at the positions…
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Hello,
I am having problems with the consensus step of Flye 2.9-b1774 installed in anaconda3, where the pipeline aborts with:
[2022-04-29 09:50:49] INFO: Starting Flye 2.9-b1774
[2022-04-29 09:50…