User: thomas58

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thomas5820
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Posts by thomas58

<prev • 5 results • page 1 of 1 • next >
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Answer: A: Mapping rate troubles
... Hello, after some investigations, I find out cause of this problem. In the pipeline, there was mistake during the sortmerna, my colleague did not apply step for merging paired reads before filtering and they run every file separetly witch caused chaos in fastq files. After applying, repair.sh from b ...
written 11 days ago by thomas5820
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Comment: C: Mapping rate troubles
... Hello Rob, sorry for late reply I did some testing because with every other analysis, I am more confused. The salmon version is not a problem so sorry for misleading information and question. These files are not identical because they were run via different pipelines. I find out at which step make ...
written 12 days ago by thomas5820
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Comment: C: Mapping rate troubles
... I am sorry I forget to mention, that we used our library kit with one exception (instead of poly-A, we used rRNA depletion). But anyway, if there would be higher or small number of rRNA, it still should not make such a big difference in mapping. Moreover, I am glad that I have high number of exons o ...
written 13 days ago by thomas5820
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Comment: C: Mapping rate troubles
... Thank you for your response, I will edit my question as soon as possible. ...
written 13 days ago by thomas5820
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Mapping rate troubles
... Hello everybody, I have troubles to obtain reasonable mapping rates for my data. I am familiar with troubles around so of course I did my homework before asking. I have zebrafish samples prepared by SureSelect mRNA kit (Agilent) and sequenced on Illumina 550 highoutput 75 PE and I proceed with stan ...
seqmonk alignment salmon star rna-seq written 13 days ago by thomas5820

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Scholar 11 days ago, created an answer that has been accepted. For A: Mapping rate troubles

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