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I tried istalling it with conda and stand alone but still it didnot work .
TRASH_run.sh: 3: Bad substitution
/vol/pac/Software/TRASH
TRASH will be run with /vol/pac/New/old_TRASH_results/TRASH/…
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When using RepeatMasker for repeat sequence annotation, I encounter an "exec failed" error with no other error messages provided. Additionally, I cannot find the generated directories /RM_1930076.TueJ…
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Hi there,
I am trying to run pred.GCN = predict_16SGCN_from_sequences(), following the information provided @ https://github.com/wu-lab-uva/RasperGade16S
However, I get the following:
No FAST…
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I installed localcolabfold and copied HighFold git repo into my localcolabfold.
So that my localcolabfold git repo looks as
![Screenshot 2024-06-25 at 5 29 04 PM](https://github.com/hongliangduan/…
kimdn updated
1 month ago
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Hi,
I am trying to add genome of interest into my kraken database. The genome is not available on NCBI and I have downloaded it from somewhere else. The tax IDs for the genome are present in both nod…
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The URL starting with 'ftp' is no longer accessible which causes a problem in get_genome and get_annotation in genome.smk.
To specify to use the URL starting with 'http' instead of 'ftp', 'url' param…
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I would like to train Augustus on three eukaryotic genomes. I have the following for each:
- a repeat-masked FASTA
- a GFF file of coding regions, exons, start codons, and stop codons
When I feed…
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Hello gifrop team,
I installed gifrop through manual and when I run % gifrop --get_islands
This is gifrop 0.0.9
command issued:
/gss1/App_os7/miniconda3/envs/gifrop/bin/gifrop --get_islands
==…
yl030 updated
1 month ago
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Hi, I ran this command to perform Isoquant quantification with the aim of obtaining transcript quantification results for all samples: isoquant.py --reference genome.fa --genedb ./merge.combined.gtf -…
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Dear Mikhail
`contig_3` in `assembly_graph.gfa` is missing in `assembly.fasta`:
```shell
$ grep ">" assembly.fasta
>contig_1
>contig_2
```
Preview of `assembly_graph.gfa`:
```
H …