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Hi there,
here is my error and i ll provide my script
Version Info: This is the most recent version of salmon.
### salmon (selective-alignment-based) v1.10.1
### [ program ] => salmon
### [ c…
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I ran "nextflow run" according to the instructions "Run the workflow for mouse data with conda," but it seems that the fastq.gz files are not being recognized correctly. Even though I specified the di…
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The following command line has been used to run the pipeline:
`nextflow run main.nf -profile az_test -w az://orange -ansi-log false -resume -with-dag dag.png`
---
This error message occurs afte…
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Hi Manu,
If doing `wc -l file.fastq` you get `12456 /path/to/file.fastq` but if doing `wc -l file.fastq.gz` you get `12345`.
This gives an error that doesn't break `vast-tool align` that looks l…
Ni-Ar updated
4 months ago
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I am trying to generate perfect reads from a single genome .FASTA file, and whenever I do, the package attempts to generate the reads but kicks me back to the help menu. I am able to generate reads wi…
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Hey
Sorry for the avalanche of issues, I cannot seem to get this to work
Running with a samples.tsv:
```
R1 R2
Sample_ID107:ID107 fastq/D1081/00_data/Sample_ID107/ID107_A…
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Hi,
I was converting a pbio ubam file to fastq like so:
bamToFastq -i input.bam -fq test.fastq
and noticed that all records are repeated twice in the fastq.
for example:
# shows twic…
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Hello,
I was wondering if you have example command line commands or bash scripts you used for preprocessing with Kallisto bustools. Thanks!
Best,
Anna
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Thanks for this great resource. `fastqc-dump` is fairly poorly documented so this workbook was a great starting point for me.
I think there is a small error on: https://bioinformaticsworkbook.org/…
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```
I'm using the fastq-mcf (1.04.662) in my pipeline to filter adaptors and trim
reads by quality.
I have used it for a methylation sequencing run and I didn't change the skew
parameter, I left th…