Hic Analysis Tools Comprehensive List
2
5
Entering edit mode
10.7 years ago
Sameet ▴ 300

Has anybody compiled a list of tools available for HiC analysis? I know about the Mirnylib, the Homer, and the HiC Inspector. But I am not aware of many other tools. I want to know what other tools exist that I an use to analyze HiC data. By Analysis I mean from the fastq.gz files to the interaction matrix that can be visualized and further processed.

Any help is highly appreciated.

• 6.5k views
ADD COMMENT
0
Entering edit mode

How to analyse the Hi-C data? or what are the prerequisite for Hi-C data analysis? please guide me, am new to computational biology. Thanks

ADD REPLY
1
Entering edit mode
10.7 years ago
margiezilla ▴ 90

There's also the HiTC R package http://www.bioconductor.org/packages/release/bioc/html/HiTC.html

ADD COMMENT
0
Entering edit mode

Yes, I have used HiTC extensively, and the author is very helpful. But the package only comes into play after you have aligned the data, and processed the interaction matrix. There is nothing in HiTC that will help you align the data.

ADD REPLY
0
Entering edit mode

Thanks

ADD REPLY
0
Entering edit mode
9.8 years ago
flyamer ▴ 60

If there still is an interest in it, have a look at his list: http://omictools.com/3c-4c-5c-hi-c-c298-p1.html

ADD COMMENT

Login before adding your answer.

Traffic: 1801 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