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Forum: Bioinformatics 05-29-2016, 06:06 AM
Replies: 240
Views: 88,833
Posted By JeanLove
getreads.sh in=af_svi_0.05Perc_22633.fasta...

getreads.sh in=af_svi_0.05Perc_22633.fasta out=bla.fasta id=6272,19594

java -ea -Xmx200m -cp /common/WORK/bbmap/current/ jgi.GetReads in=af_svi_0.05Perc_22633.fasta out=bla.fasta id=6272,19594...
Forum: Bioinformatics 05-29-2016, 01:59 AM
Replies: 240
Views: 88,833
Posted By JeanLove
I have tried it, but i get the java error: ...

I have tried it, but i get the java error:

Exception in thread "main" java.lang.RuntimeException: GetReads terminated in an error state; the output may be corrupt.
at...
Forum: Bioinformatics 05-28-2016, 08:26 AM
Replies: 240
Views: 88,833
Posted By JeanLove
I do not know identifiers.. :( ...

I do not know identifiers.. :(




thanks for your help, i'll look faSomeRecords utility up! :)
Forum: Bioinformatics 05-28-2016, 03:08 AM
Replies: 240
Views: 88,833
Posted By JeanLove
hi! is there a way to extract specific sequences...

hi! is there a way to extract specific sequences from fasta file, regarding their positions in the file using BBMap tools? I know the numbers of their name lines and want to extract whole sequences...
Forum: Bioinformatics 04-18-2016, 06:09 AM
Replies: 104
Views: 32,986
Posted By JeanLove
Hi! Although this is a very helpful post, there...

Hi! Although this is a very helpful post, there is still so much unclarities about Tadpole.
As input, I have fasta file with ~11 mil reads, and I would like for Tadpole to take 50% random reads from...
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