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Hi all,
I am using v 3.0.1 to analyze some assembled transcripts. Now I am interested in a single best orf so I am using "--single_best_orf" option. I am also including blastp and pfam search. Some…
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**Describe the bug**
Installations on NIH's Biowulf cluster are read-only-- in particular, I'm trying to build a singularity container for antismash (with a native interface--to appear as a bare meta…
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When running TransDecoder.Predict, e.g. in the following example:
`hmmscan --cpu 8 --domtblout pfam.domtblout /path/to/Pfam-A.hmm transdecoder_dir/longest_orfs.pep`
Why is the input file longest…
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It would be useful to have the link to sequences in Pfam alignments or the possibility of selecting/copying the accession ID, at least for the SEEDs (sometimes full alignments are huge)
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If I load a Pfam file, perform some manipulations, and then write it back out to disk, I can't load what I write:
```julia
julia> using MIToS, MIToS.Pfam, MIToS.MSA
julia> pfamfile = "PF18883.a…
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Hello! I very much enjoyed reading about this work, and I was able to successfully install and run all of the example code that you have provided. I modified the test_DRD.py code to print the datafram…
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[As per this site](https://cryptogenomicon.org/2011/05/27/hmmscan-vs-hmmsearch-speed-the-numerology/), `hmmsearch` is significantly faster and parallelizes better than `hmmscan` (at least when searchi…
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- [x] I checked and didn't found a related issue,e.g. while typing the title
- [x] ** I got an error in the following rule(s):**
- [x] I checked the log files indicated indicated in the…
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Hi Brian,
Having a weird Perl related issue. I've tried 2.0.1 and 3.0.0. The computer has Perl 5.22 installed, and I've just updated all the Perl modules.
The code:
```
test/TransDecoder-3.0.0/Tr…
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Hello,
We are facing error: "Failed to mmap memory dataSize=80676316565 File=DRAM_data/database_files/pfam.mmsmsa. Error 12." while preparing for database.
It is halting with "subprocess.CalledPr…