Counting

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Jun Xu edited this page Nov 7, 2023 · 8 revisions

Overview

Gene quantification of each samples.

Prerequisites

Java 8
http://www.oracle.com/technetwork/java/javase/overview/java8-2100321.html
HTSeq
https://htseq.readthedocs.io/en/release_0.11.1/count.html

Usage

From the command line,

java -Xmx100g -jar SiPAS-tools.jar -a Counting -i ./inputFileDirS/ -anno *.gtf -t 5 > log.txt &

-i Input file path, which will search for the contents of the sams folder under the folder.

-t The number of threads.

Author

Jun Xu
https://github.com/Junjun-Xu

Song Xu
https://github.com/XscapeCn

Xiaohan Yang
https://github.com/Yangxiaohan0120

Fei Lu
flu@genetics.ac.cn; dr.lufei@gmail.com
https://github.com/Fei-Lu