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Forum: Bioinformatics 07-28-2016, 07:44 AM
Replies: 2
Views: 1,310
Posted By nw328
How Do Mappers Handle Chromosome Ends?

I am trying to figure out how BW-based mappers like BWA and Bowtie handle reads that map at the end of the reference and extend off the end. One example would be reads from the origin of a circular...
Forum: General 09-18-2015, 01:46 PM
Replies: 0
Views: 830
Posted By nw328
The effect of normalization on asymetrically DE genes

Hi All,
We are studying a transcriptional repressor protein by comparing the WT to a strain lacking that repressor in an RNAseq experiment. Because the protein is a repressor, most of the DE genes...
Forum: Bioinformatics 01-27-2015, 11:15 AM
Replies: 9
Views: 1,789
Posted By nw328
Hi Michael Love and hiddenrisk, Thank you...

Hi Michael Love and hiddenrisk,

Thank you so much for your replies- both helped fix the error, for I did need to rework the comparisons, and I did have a stray NA. Thanks again!
Forum: Bioinformatics 01-26-2015, 11:52 AM
Replies: 9
Views: 1,789
Posted By nw328
DESeq2 Error

Hi All,
I am trying to use DESeq2 to analyze some RNAseq count data from a .csv. It is an experiment with 5 conditions done in duplicate (WT, null, condition1, condition2, condition3) . I am...
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