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Forum: Bioinformatics 04-19-2018, 03:49 AM
Replies: 0
Views: 1,375
Posted By sublimetech
Question BLAST taxid to complete linage using biopython on a local machine.

Hello all,

Using BLAST, I am trying to identify thousands of sequences. To make my job a bit easier, I would like to classify these sequences first by sorting them on phylum e.g. only keep BLAST...
Forum: Bioinformatics 12-12-2014, 02:00 PM
Replies: 0
Views: 1,056
Posted By sublimetech
help an undergraduate with his project

Hi,

I am an undergraduate student in bioinformatics and I am looking for some advise on a project I am working on.

I have multiple samples from a cancer. The goal is to get the lncRNA and...
Forum: Bioinformatics 11-20-2014, 05:07 AM
Replies: 13
Views: 3,851
Posted By sublimetech
So I desided on starting runn yesterday, juse to...

So I desided on starting runn yesterday, juse to so what would happen if I provided less inputs. Here is the output:

[2014-11-19 13:33:33] Beginning TopHat run (v2.0.9)...
Forum: Bioinformatics 11-19-2014, 09:52 AM
Replies: 13
Views: 3,851
Posted By sublimetech
I do, Also could you explain why biological...

I do, Also could you explain why biological replicates need to be done in separate runs as opposed to one run for technical replicates? (need to put everything in a report for school)
Forum: Bioinformatics 11-19-2014, 08:53 AM
Replies: 13
Views: 3,851
Posted By sublimetech
Biological replicates. so what I gather the...

Biological replicates. so what I gather the mentioned link is that I should run tophat 50 times? (once for each paired read)
Forum: Bioinformatics 11-19-2014, 08:32 AM
Replies: 13
Views: 3,851
Posted By sublimetech
but doesnt the command require a list?

but doesnt the command require a list?
Forum: Bioinformatics 11-19-2014, 07:54 AM
Replies: 13
Views: 3,851
Posted By sublimetech
I am specifying all 100 files and running in a...

I am specifying all 100 files and running in a terminal
Forum: Bioinformatics 11-19-2014, 07:39 AM
Replies: 13
Views: 3,851
Posted By sublimetech
Tophat error: Broken pipe

Hi,

I am a student trying my hand at bioinformatics. While performing an analysis I got the following output:

[2014-11-04 11:54:56] Beginning TopHat run (v2.0.9)...
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