Hi,
I recently read a few reviews that point to SHRiMP as the short read aligner of choice when mapping small RNA-seq reads to a database...
7 results in 0.0032 seconds.
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SHRiMP - Which parameters for aligning to miRNAs?
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SHRiMP and Cufflinks for strand-specific SOLiD bacteria RNA Seq questions
I have SOLiD RNA-Seq data for a bacterium that we study grown under two different conditions. We did paired end sequencing but the F5 reads were very... -
SHRiMP2 for smRNA
I've been working with smRNA data for the last little while trying to come up with a pipeline to replace the AB smRNA tools that we were previously using... -
SHRiMP and SOLiD Qualities
I want to run SHRiMP on SOLiD data, but despite reading the manual I can't find a parameter that allows me to give the .qual file as input. Does SHRiMP... -
SHRiMP vs BFAST
Hi all,
I am working with 50-bases-length Solid RNA-seq data. I want to do both genotyping and RNA quantification. I am currently hesitating...Last edited by mathieu; 10-15-2010, 05:53 AM. -
to aligning all reads with SHRiMP (as automatic)
Hi,
I'm new in SHRiMP. I have 10 library and for each library, i had used the splitreads.py of SHRiMP to 1000 files. Then, i have 1000... -
SHRiMP - how to obtain unique mapped reads?
Hi,
Can any SHRiMP users tell me how they obtain unique mapped reads (those mapped reads that only map to one position in the genome)....
