Question: Errors coming up in filtered SOLiD csfasta reads after using
gravatar for zainab12khanum
2.3 years ago by
International Center for Chemical and Biological Sciences
zainab12khanum0 wrote:

Hello, I am a beginner in Transcriptomic analysis.I am using SOLiD 5500 platform and have sequenced short fragment reads.I first converted the XSQ format in to csfasta and Qual and then used the script for Pre-processing of these files. The script I used was:

 perl -i f -f [path for csfasta file] -g [path for Qual file] -o [output directory name]

All the filtered reads in Filtered-T- files still had dots in the start, middle and in the end. We can not use this data to run SATRAP assembler as Oases will not encode the dots. Please guide us and provide us with the scripts to get right results. Also please advice us that are we leaving out some parameters in this script? Thank you.

ADD COMMENTlink written 2.3 years ago by zainab12khanum0
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1872 users visited in the last hour