Hello,
I am using miRDeep2 to calculate the read counts for sequenced Mouse samples. I am using mature miRNAs and hairpin miRNAs from mirbase...
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Duplicate miRNAs with different read counts in miRDeep2
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I have a problem installin miRDeep2
Hello I want use miRDeep2 on my mac (Yoseimite).
So I downloaded miRDeep2 on https://www.mdc-berlin.de/8551903/en/
I open iterm... -
Galaxy smallRNA Analysis help
Hi,
I've been playing with Galaxy lately to do my data analysis for smallRNA (Illumina).
I think I'm getting what I want but I'm stuck... -
mirdeep2
Dear all,
I am new for miRDeep2. Now I am trying to use the datasets from GEO. But how could I convert the geo txt file to fasta file.... -
pdf generated by mirdeep2
As you can see, for the pdfs generated by mirdeep2, the secondary structure and the reads seem to overlap over each other. Why... -
Some problem with the perl wrapper in mirdeep2
I am finding it hard to get the make_html.pl file working for mirdeep2. I was adviced to install the module separately and give a path to it. This is...Last edited by potterbond007; 07-09-2014, 03:26 AM. -
mirDeep2 mapper.pl is making an empty reads_collapsed_vs_genome.arf file - help?!
I'm having trouble running mirDeep2, and I was hoping someone could help me out. I ran mirDeep2 fine the other day, but now it's mysteriously no longer... -
miRDeep2 arf format error
Hi,
I'm using miRDeep2 to find new miRs in Mouse genome. I have RNA seq data from Illumina.
I used mapper.pl to generate... -
differential expression of Novel miRNA and its validation
Hello all,
Could someone suggest me that how to discriminate control vs treatment of predicted novel miRNA by mirdeep2 ??? in order to validate...Last edited by unique379; 05-23-2014, 12:00 AM. -
problem to launch miRDeep2 by PBS
Hi all,
Here i am facing a small problem to launch miRDeep2 into my server by PBS. plz short-out anyone.
error:
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mirdeep2 installation (make_html.pl error)
Hi,
I am installing mirdeep2 now. At the last step, when I tested make_html.pl, error appeared as following:
[liran@ip14-mp2... -
miRDeep2 problem
Dear all,
Does anyone know that how to convert .sam (mapped file by bowtie) into .arf for as input in miRDeep2.pl ???
i... -
How to use DESeq with non Integer values from mirdeep2
Hi,
I've recently started using mirdeep2 for miRNAseq data and would like to do a DE analysis between two conditions.
The... -
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Normalization of miRNA counts across different samples using miRDeep2
I am using miRDeep2 to analyze my small RNA sequencing data. The quantifier.pl module outputs read counts and normalized read counts for miRNA within...
