I am trying to use bowtie to assign reads to the s. Cerevisiae genome. I
have data from paired end SOLiD sequencing with two unique six base pair
barcodes. Can I use bowtie to make csfasta and qual files from my mixed
original data split by bar code? I know I can use the trim option to remove
th
I have created fixed-step wiggle files for a project that I am working on,
but I am wondering if there is an easy way to transform the values by a
correction factor to account for differences in in the number of reads for
two different samples (one had 1.5 million or so, the other had 6.6million).
I am trying to compare two genetically different strains that I have
sequenced using SOLiD. I was trying to ask where these two strains are
different, either in terms of deletions or polymorphisms, and one idea I
had was to use Bowtie to create an index from one of these strains and then
to map my
I recently tried to upload a custom made index for bowtie using Filezilla
as my FTP source, but I got an error message, I think due to the autodetect
for file type not recognizing this file type. Is there something special
that I should do to upload my six .ebwt files for my reference?
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