There's also CLC Genomics Workbench (although it is a commercial package).
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Yes, CLC Genomics Workbench will use all three data types. I use the program on Windows. However you will need lots of RAM. For my files/genomes I needed 32GB (the max we could put into my box). If you work with small bacterial genomes and simple transcriptomes you maybe able get away with 8GB RAM (the minimal requirement for CLC Workbench)
Marta
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Originally posted by Marta View PostYes, CLC Genomics Workbench will use all three data types. I use the program on Windows. However you will need lots of RAM. For my files/genomes I needed 32GB (the max we could put into my box). If you work with small bacterial genomes and simple transcriptomes you maybe able get away with 8GB RAM (the minimal requirement for CLC Workbench)
Marta
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Originally posted by ECO View PostYou are more than welcome to start annotating the software packages in our wiki: http://wiki.seqanswers.com. I believe Dan is working on a set of instructions for new wiki users.
Thanks!Originally posted by wuhoucdc View PostHi all,
Who have the time to summarize the programs that can be used call SV such as large rearrangement, deletion, amplication among NGS? Thanks.
Wuhoucdc
;-)
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Originally posted by Nomijill View PostSciguy, I notice that you last updated your list in August. Are there any significant changes since then? Or am I wrong about the reading of the update?
The data @ http://wiki.seqanswers.com is probably a bit more current as it's being maintained by the community rather than just sciguy and myself!
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I'm guessing we need some kind of wiki forum ... but I not sure what form... um?
I think the problem is that the wiki is so bad for threaded conversations, we need a place to discuss the wiki...
For each software package that is in the wiki, I have added a link to search the forum for that package. This is only a small step. Generally I'm not sure how to more tightly integrate the two different approaches.
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