Question: indexerror of afterqc for quality control
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gravatar for mahsa.saliani
13 days ago by
mahsa.saliani0 wrote:

I am trying to do quality control of my fastq files with afterqc. I had installed pypy successfully. But I see this error while I am trying to trimming. IndexError: string index out of range this is my command:

pypy after.py --read1_file=/home/mahsa/Documents/HCT116/SRR1756569_1_fastqc.zip --read2_file=/home/mahsa/Documents/HCT116/SRR1756569_2_fastqc.zip --trim_front=-1 --trim_tail=-1 --trim_pair_same=false -z --qualified_quality_phred=20
rna-seq software error • 59 views
ADD COMMENTlink modified 13 days ago by WouterDeCoster37k • written 13 days ago by mahsa.saliani0

I added code markup to your post for increased readability. You can do this by selecting the text and clicking the 101010 button. When you compose or edit a post that button is in your toolbar, see image below:

101010 Button

For the developers, it is probably more helpful if you include the full error message, and use tags here appropriately. Using only rna-seq" and "software error" is not very specific. It is also not guaranteed that the developers are on biostars, so a better place would be the afterqc github issue tracker

ADD REPLYlink written 13 days ago by WouterDeCoster37k
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