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Forum: Oxford Nanopore 09-23-2016, 05:28 AM
Replies: 2
Views: 4,965
Posted By CHObot
minIon for plasmid sequencing

I was just wondering if anyone has used the minIon for plasmid sequencing? I suppose it might be overkill and a waste or reagents for such a small task. But I am asking because I have large...
Forum: Bioinformatics 08-22-2013, 08:17 AM
Replies: 9
Views: 8,158
Posted By CHObot
Yet another way (and more general) is to use the...

Yet another way (and more general) is to use the BioPython module. You will want to get familiar with handling sequences like this anyway, it is much more convenient to have a data structure. It...
Forum: Bioinformatics 07-26-2013, 01:41 PM
Replies: 24
Views: 7,253
Posted By CHObot
I would suggest carefully reading the manual...

I would suggest carefully reading the manual here:

http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/TrimmomaticManual_V0.30.pdf

There are some powerful options like using...
Forum: Bioinformatics 07-26-2013, 01:37 PM
Replies: 5
Views: 3,747
Posted By CHObot
BWA MEM question

I am using BWA MEM to map 250 bp MiSeq PE reads. I am doing targeted genomic sequencing, enriching the library for specific transgenic sequences. I make a reference sequence, map all of the reads...
Forum: Bioinformatics 07-26-2013, 01:26 PM
Replies: 24
Views: 7,253
Posted By CHObot
I second the vote for timmomatic. Once you get...

I second the vote for timmomatic. Once you get the hang of how to make the adapter seqeunce file, it is really easy to use, fast and takes care of all of the paired end info stuff. A very powerful...
Forum: Bioinformatics 05-16-2013, 02:45 PM
Replies: 10
Views: 1,452
Posted By CHObot
I suggest you post the images inline, as no one...

I suggest you post the images inline, as no one in their right mind will click on that attachment.
Forum: Bioinformatics 05-10-2013, 02:59 AM
Replies: 3
Views: 847
Posted By CHObot
Thanks for the suggestions. I'll look at the...

Thanks for the suggestions. I'll look at the other thread and try your suggestions.
Forum: Bioinformatics 05-09-2013, 03:01 PM
Replies: 3
Views: 847
Posted By CHObot
Finding a read's mate

I have a BWA alignment of reads to a small (50 kb) reference sequence. It is a transgenic sequence inserted into a host cell genome. I want to be able to locate the insert's position in the host...
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