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Hello,
I'm really appreciative of the newick format that you recently introduced!
I think this is a bug in building the tree. As I'm working with the newick file, it appears the newick tree is m…
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Hi, I am recently tried to use R version of MEME to get motifs.
My purpose is try to include different size of input fasta to see whether the motifs are conserved. And I want long motifs (about 16).
…
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I am running mitofinder on assembled contigs to search for mtDNA/Genomes. However, I am missing CO1 from the output. I thought maybe I just didn't capture that mtGene. However, to confirm my suspicion…
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I want to generate a db of all kmers and their counts for a reference genome using `meryl count`, then for thousands of small (~1-5 kbp) sequences I want to extract all kmers and find their counts in …
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Hi, I'm working with MAF files that were generated by another person from Caveman/Pindel calls and I'm trying to convert them to VCF files to work with another tool. For some of the samples I get the …
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Dear authors,
I got the error at prothint step.
```
# Thu Mar 21 12:48:30 2024: Calling prothint.py...
# Thu Mar 21 12:48:30 2024: starting prothint.py
/data/scratch/mpx586/github/gene_predic…
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The query sequence in the A3M format should be gapless as discussed in #96. The `hhstuite` provides a script [reformat.pl](https://github.com/soedinglab/hh-suite/blob/master/scripts/reformat.pl) capab…
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For multi-FASTA files it may be useful to be able to exclude certain sequences by FASTA header ID when performing the pairwise SNP comparison. For example, excluding the reference sequence when proces…
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Dear community,
The -c parameter is used to generate the consensus sequence,but it is too slow.
Can I use prefix.dmo.lay.utg as the final contig.fasta ?
Thank you.
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I found a buffer overflow in [bns_fasta2bntseq] function.
```
int64_t bns_fasta2bntseq(gzFile fp_fa, const char *prefix, int for_only)
{
extern void seq_reverse(int len, ubyte_t *seq, int is_comp…
H4niz updated
4 years ago