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Forum: Illumina/Solexa 04-19-2013, 03:45 PM
Replies: 3
Views: 1,769
Posted By mariruilo
Thank you very much for the answer, it is very...

Thank you very much for the answer, it is very helpful.

Mari
Forum: Illumina/Solexa 04-19-2013, 01:03 PM
Replies: 3
Views: 1,769
Posted By mariruilo
Hi Minoru, I'm having the same problem. Did...

Hi Minoru,

I'm having the same problem. Did you find an answer for it? Thanks.
Forum: Bioinformatics 04-01-2013, 11:08 AM
Replies: 2
Views: 2,534
Posted By mariruilo
Thank you so much, I think I had changed...

Thank you so much, I think I had changed everything except for that. Actually I hadn't seen the space...
It seems to be working now.
Forum: Bioinformatics 04-01-2013, 10:48 AM
Replies: 2
Views: 2,534
Posted By mariruilo
Numberformatexception error in Trimmomatic

Hi Folks,

I'm running trimmomatic, and get an error I've never found before, and don't know how to solve. I think my command line is fine, although so far I've only run single reads, and this is...
Forum: Bioinformatics 04-01-2013, 10:28 AM
Replies: 31
Views: 13,214
Posted By mariruilo
From what I understand the option -Phred is to...

From what I understand the option -Phred is to tell the program how your quality is coded, either -33 or 64. If you want to trim using a quality of 20, you need to use the sliding window option.
...
Forum: Illumina/Solexa 01-17-2013, 08:51 AM
Replies: 11
Views: 5,893
Posted By mariruilo
Thank you so much GenoMax! I'm newbie to RNAseq...

Thank you so much GenoMax! I'm newbie to RNAseq and all that information has been really helpful...
Forum: Illumina/Solexa 01-16-2013, 10:05 AM
Replies: 11
Views: 5,893
Posted By mariruilo
Aparna, I'm doing RNAseq with Nextera and...

Aparna,

I'm doing RNAseq with Nextera and oberved exactly the same pattern on the first 15bp, with overrepresented sequences. I'm doing de novo assembly, and thought about running the assembly...
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