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Hi
I follwed the protocol and checked teh mapping rates of my 50 samples using bowtie and bowtie2 as suggested:
bowtie2 -p 10 -q --no-unal -k 20 -x Trinity.fasta -1 reads_1.fq -2 reads_2.fq \
…
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Hi
i tested BitMapperBS recently ,it was really an ultrafast and memory-efficient aligner.
i runned the software successfully.but i have same problems with the output. the output didn't contain Met…
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Hi
I was just trying out Necat and experienced this error:
"2020-09-13 15:36:41 [WARNING] Unrecognized the suffix of /scratch/reads/P14702.nanoporeDNA/data/pass.5kb.fq.gz"
Apparently the inpu…
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I am getting the following error when I try the URL directly from the XHR request, but the interface in grafana is returning `e is undefined`
>Message Invalid character found in the request target …
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Hi, I tried running the pipeline and got this error:
Killed
(ERR): hisat2-align exited with value 137
[E::aux_parse] Incomplete aux field
samtools view: error reading file "-"
samtools view: er…
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https://github.com/Snitkin-Lab-Umich/scripts/blob/32b965c6a25fd8f26de5b8044b37e06597104a42/variant_matrix_qc.R#L125
Per lab meeting discussion on March 29
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```
What steps will reproduce the problem?
$ cat test_empty_seq_line.fa
>test1
>test2
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>test3
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
…
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```
What steps will reproduce the problem?
$ cat test_empty_seq_line.fa
>test1
>test2
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>test3
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
…
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```
What steps will reproduce the problem?
$ cat test_empty_seq_line.fa
>test1
>test2
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>test3
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
…
-
```
What steps will reproduce the problem?
$ cat test_empty_seq_line.fa
>test1
>test2
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>test3
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
…