Question: Map With Bowtie For Illumina (Version 1.1.2)
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gravatar for KNIGHT M.R.
7.1 years ago by
KNIGHT M.R.30
KNIGHT M.R.30 wrote:
Hi, I'm trying to assemble Illumina paired sequence which is at least 15x deep to the Arabidopsis genome (TAIR 10 version) using Map with Bowtie for Illumina (version 1.1.2) but try as I might with changing all the parameters in different ways to reduce stringency I am still getting a lot of gaps in the assembly (probably about 10% missing). What settings would you advise I focus on to try and improve the situation? Many thanks in advance! Marc. *** Professor Marc R. Knight, Director, Durham Centre for Crop Improvement Technology, School of Biological and Biomedical Sciences, Durham University, South Road, Durham DH1 3LE. Tel: +44 191 33 41224 Fax: +44 191 33 41201 Website: http://www.dur.ac.uk/dccit/ ***
alignment bowtie • 816 views
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