how to save hisat reads info to txt
2
0
Entering edit mode
6.4 years ago
CL2017 • 0

At the end of hisat, the reads and percentage is usually print out directly. Does anyone know how to save this printout into a txt file?Thanks!

RNA-Seq • 2.1k views
ADD COMMENT
0
Entering edit mode

Do you still use HISAT rather than the successor HISAT2, as recommended by the developers? If you use HISAT2, use the --summary-file option which will save the summary to a file.

ADD REPLY
0
Entering edit mode

Thank you everyone. It works~

ADD REPLY
1
Entering edit mode
6.4 years ago

append &> hisat.log at the end of your command

ADD COMMENT
0
Entering edit mode
6.4 years ago
GenoMax 141k

You can redirect standard out (things printed to screen) and any errors to files. hisat your commands > hisat.log 2>error.log

ADD COMMENT

Login before adding your answer.

Traffic: 2398 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6