Thank you so much!
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littlebioinformatician •
Pre-Made STAR Index for mm10 Mouse Genome
Hello! I am currently looking for a source where I can download pre-built STAR indices for the mm10 mouse genome, as I do not have sufficient resources to generate the index myself. Is there any website available for this purpose?
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littlebioinformatician •
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littlebioinformatician •
1 answer
Found this online :)
You'll need to download all those individual files (chrLength.txt, SA, Genome, etc.) and put them into a directory and that directory path will be your "star index" path that you supply to STAR.
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If that is the case you may also run into issues with alignments. STAR will require ~30G of RAM for alignments.
Consider using
salmon/kallistoin that case instead.Yes, I will consider that also. Thanks a lot!
HiSat is another RNA-seq aligner which uses less RAM.