Issues while running htseq-count
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16 days ago
Foad ▴ 10

My data is Candida glabrata and when i use htseq-count, no read is mapped to the gene_id.

Thank you for your time and help.

Foad

htseq-count GSNO_SRR1582646.sam Candida_glabrata_genome.gtf > GSNO_SRR1582646.count

10975 GFF lines processed.
8843 alignment record pairs processed.
head GSNO_SRR1582646.count 

gene-CAGL0A00165g   0
gene-CAGL0A00187g   0
gene-CAGL0A00209g   0
gene-CAGL0A00231g   0
gene-CAGL0A00253g   0
gene-CAGL0A00275g   0
gene-CAGL0A00297g   0
gene-CAGL0A00319g   0
gene-CAGL0A00341g   0
gene-CAGL0A00363g   0
Candida-glabrata RNA-seq htseq-count • 440 views
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Can you please show us the output to:

grep -m25 -v "^#" Candida_glabrata_genome.gtf
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Hi,

i want to send it to you, but i get this error.

**content

Language "nl" is not one of the supported languages ['en']!**

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Please add the following line (as shown) below your post content. This should address the error above.

<a href="" title="Text added because biostars parser needs it"></a>
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Unfortunately, it is not possible.

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What is not possible? This is a simple line you need to add when you respond. Copy and paste it as shown in editor window. Including the brackets and all.

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What I mean is that it gives the same error as befor.

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That's odd. With 25 lines, there's enough content for the parser to stop complaining about language unless there's some language specific content in the 25 lines.

Please paste the 25 lines in a GitHub gist and paste the link to the gist in a comment (instructions here)

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