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I'm using a model organism pan-genome which results in ~100000 smaller contigs and it seems like STAR stall shortly after running (the output file only reach ~7.5Mb):
The Log.progress.out:
> …
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Hi Alex,
I have been trying to work with single-end 50 bp read length RNA seq data for 48 sample sets of the Drosophila genome. I used STAR to align my reads but I'm getting **_no uniquely mapped r…
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I noticed a case where the reference and mutation AA is incorrect. It appears to be due to a variant in a codon split between two exons (NM_003345.4 exons 6 and 7).
hg19 test variant:
chr16 137051…
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Hi，thanks for your kindly response. Here I modified my comments.
There are two ways to get union of assembled transcripts and the reference transcriptome
* we can get all.fa by doing:
```
scallop…
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It generates "Segmentation fault".
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Running STARlong with very long reads, I found two problemes:
- Non-existing operartions in cigar string.
- Transcriptome bam has not any aligned reads, what is wrong because genomic bam reports posi…
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## Bug report
### Expected behavior and actual behavior
Should submit jobs to LSF. Instead crashes after a while.
### Steps to reproduce the problem
Run a workflow with lsf as the executo…
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#transcript expression file: iso_NAC_PFC_255_tpm_formatted.txt
[arkhan@login1 arkhan]$ cat iso_NAC_PFC_255_tpm_formatted.txt|head
X129X1_255NAC_quant X129X1_255PFC_quant
ENSMUST00000193812.1 …
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Hi,
Thank you for developing tools for RNA sequencing. We are using zUMI to analyze published datasets. But we've got an error. Could you help us for trouble shooting? Thank you~
The error content…
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Hi @alexdobin,
I am trying to build a STAR Docker container based on the Alpine Linux image. Alpine is a very light Linux distribution which relies on `musl libc` instead of `glibc` and I needed a fe…
emi80 updated
5 years ago