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Many libraries support streaming FASTA/FASTQ data through stdin. It would be pleasant for that mode of operation to be supported as it is handy when writing small stream processors
```bash
$ cat t…
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Hi @yoshihikosuzuki ,
I am using ClassPro like this:
`$ ClassPro -v -T16 -NResults/13_profile_reads/Profile_17_mers -r7000 Results/11_preprocess_fastq/My_file.fastq.gz`
And get this output:
```
…
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### Description of the bug
Hi,
I'm trying to run sarek with "mutect2" for variant calling.
Pipeline completes successfully, but the folder "output/variant_calling/" is empty.
It seems like proce…
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Hi,
I have a samplesheet that contains the paths to test data relative to the project root directory (i.e. `./tests/fastq.fq`). This can be fed into `nextflow` just fine. I cannot use it for `nf-test…
rollf updated
2 weeks ago
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Hi,
I am using hifiasm with parameter
hifiasm -o ./Hifiasm3_l3/Gon --primary -t20 --purge-max -l3 -s 0.35 --h1 ./HIC/Raw_Data/filtered_Insect_S118_L004_R1_001.fastq.gz --h2 ./HIC/Raw_Data/filtered…
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I do not understand how to properly set up the metadata and the files.
I merged all the files per barcode into:
"barcode01.fastq.gz"
"barcode02.fastq.gz" ... etc
(using cat) and obtained 12 fi…
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Hello, I hope you are well!
I'm able to download a specific NCBI Assembly via `bactopia --accession [accession]` -- is there a way to do so with a list of NCBI Assembly accessions (i.e bactopia --…
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Hi,
I used fastq-dump to get fastq_1 and fastq_2 from the download file and your script to separate fastq files. But there are some thing wrong with transformed fastq files. The separated DNA and R…
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To whom this may concern,
I ran the "run_example.sh" test and got the following error message on a Linux cluster:
ERROR: Component "Interleaver" (sample:Modified) failed, giving the following er…
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The fastq table seems damaged as it only contains two columns:
```
> dbGetQuery(sra_con, 'PRAGMA TABLE_INFO(fastq)')
cid name type notnull dflt_value pk
1 0 run_accession TEXT…