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I hope this message finds you well. I am currently exploring smoothxg algorithm. I came across a statement in the paper that raised some questions for me:
"A key issue is that pairwise alignments d…
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RSAT `position-analysis` detects k-mers that present any type of positional heterogeneity by running, for each k-mer, a chi-squared homogeneity test on its profile of counts per positional windows com…
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Hi Martin,
Is difflogo able to compare more than two long tandem repeat motifs? I am working on the evolution of a specific family of centromeric tandem repeats across several species and the motifs …
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> ... transcription factor motif analysis was carried out with the FIMO package, with a p-value threshold of 0.001. A total of 614 human transcription factor binding motifs from the HOCOMOCO database …
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Hello I have been trying to run MoSEA/mosea.py scan on the test files and I get this error.
python MoSEA/mosea.py scan --pfm --pfm_path MoSEA/test_files/motifs/pfms/ --fasta fafile_reg --out_dir fmo…
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When single quotation mark is used for the `seq` parameters in the descr files, the behavior is weird.
Tested on sequence:
```
>t
TTTT
```
When single quotation marks are used in descr file, …
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I have a binary classifier trained and computed deepLIFT scores for just the genomic sequences that belong to class 1. My expectation was to get only positive motifs but I also get negative motifs. Ho…
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Dear Team,
I have been working on developing the generative model for DNA sequences. For a fair comparison, I compare different algorithms in the unconditional generation case. It seems that DDSM f…
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I am running prodigal of a hybrid assembled genome using the following command:
`prodigal -i $assembly -o $path/annotated/$outdir -a $path/annotated/$protein`
and I get the following logs:
``…
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**Describe the bug**
I have noticed in project-wide and cohort-wide recessive searches that the search fails if SV annotations are selected for either first or second hit. Seqr will load for a long t…