-
```
What steps will reproduce the problem?
$ cat test_empty_seq_line.fa
>test1
>test2
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>test3
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
…
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This is related to #74 and to some degree with #73 .
The current formats (`{fastq}`, `{mapping}`) are somewhat hard use.
Both formats leak internal information (e.g. `1:file preproc.lno10.pairs.1…
unode updated
6 years ago
-
I am confused about how the two FASTQ files have their reads arranged. Is it like this website?
[Forward and reverse reads](http://www.cureffi.org/2012/12/19/forward-and-reverse-reads-in-paired-end-s…
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Hi @marcelm
I'm using cutadapt 4.4 with python 3.10.12 and I'm stumbling into this error when trimming the ultra long ULK114 adapters from a specific ONT Promethion flowcell. I'm wondering whether…
-
Hi Guys,
I am using aDNA trim as follows:
`seqtk mergepe R1.fastq R2.fastq | adna-trim -p aDNA_trim_pe - > aDNA_trim_merged.fastq`
The data is a NovaSeq sample pre-processed with FasP to trim pol…
-
```bash
Channel
.fromSRA('ERR3561489')
.println()
results in:
[ERR3561489, [/vol1/fastq/ERR356/009/ERR3561489/ERR3561489_1.fastq.gz, /vol1/fastq/ERR356/009/ERR3561489/ERR3561489_2.fastq…
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Hi @hasindu2008 ,
Thank you for developing f5c !
I wonder know whether f5c eventalign can output basecalling kmer?
Generally, f5c eventalign will output the following header files.
contig posi…
-
Hello, i have some problem with using this tools...
First i made a config file by using command: necat.pl config config.txt
i only change project, ONT_READ_LIST, GENOME_SIZE, THREADS like this...
…
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Hello,
I am trying to run the pipeline for chicken samples and have tried to create a custom genome reference for the pipeline. However, after finishing the steps here [https://github.com/ENCODE-de…
-
Hi,
I am running mmdiff, with three groups each with 3 replicates. The program throws up this error:
The command that I am using is :
`~/Softwares/MMseq/mmseq/bin/mmdiff-linux -m mat1.txt /me…