Question: genome sequence look up tool
0
gravatar for evcon
27 days ago by
evcon0
evcon0 wrote:

Is there a tool to look up genomic sequences? Something in python would be most helpful. For example something like this:

>>>getseq('chr1'.'100500','100505')
AACTGC
sequence genome • 117 views
ADD COMMENTlink modified 27 days ago by h.mon18k • written 27 days ago by evcon0

search this site for "samtools faidx" and the related python libraries (pyfaidx)

ADD REPLYlink written 27 days ago by Pierre Lindenbaum111k

Thanks! This is perfect! Knew this had to exist already.

ADD REPLYlink written 27 days ago by evcon0
1
gravatar for h.mon
27 days ago by
h.mon18k
Brazil
h.mon18k wrote:

BioPython and pyfaidx in python, samtools on the command-line

ADD COMMENTlink written 27 days ago by h.mon18k
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