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PouletAxel / SIP

SIP: Significant Interaction Peak caller
GNU General Public License v3.0
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Eliminating Juicer Tools Dependency #17

Open sa501428 opened 2 years ago

sa501428 commented 2 years ago

Java Straw is pretty mature and allows direct reading of the .hic file with a fairly straightforward API. It is far more efficient than dumping the data and then reading it into SIP. Happy to arrange a meeting to explain the API and facilitate this enhancement. Dump is actually being deprecated in favor of straw, so this is ideally a change which should be made sooner rather than later. Furthermore, straw can read the latest version 9 of the .hic file format, and overall should improve usability of SIP.

sa501428 commented 2 years ago

https://github.com/sa501428/java-straw

PouletAxel commented 2 years ago

Hi, Thanks, I will look at it first and if I am struggling, we can set a meeting. Axel

PouletAxel commented 2 years ago

Do you have time for a meeting next Tuesday around 3:30pm EDT?