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Forum: Bioinformatics 12-14-2016, 11:09 AM
Replies: 15
Views: 13,148
Posted By RamakrishnanRS
Ummm

Ummm uBAM doesn't have alignments. It's called "unaligned BAM" for a reason.
Forum: Bioinformatics 11-29-2016, 11:28 AM
Replies: 15
Views: 13,148
Posted By RamakrishnanRS
Where are we today?

Where do we stand on this today? If someone were to build a pipeline, what are the data points they should look at to decide between FASTQ and uBAM?

Most of all, file size concerns me. I no longer...
Forum: Bioinformatics 07-08-2015, 02:03 PM
Replies: 9
Views: 1,711
Posted By RamakrishnanRS
Plus, even if it were MPI compatible, the PBS...

Plus, even if it were MPI compatible, the PBS script/command may need to be modified with an option or directive to pick an MPI-enabled node.
Forum: Bioinformatics 07-08-2015, 12:23 PM
Replies: 9
Views: 1,711
Posted By RamakrishnanRS
It does look like a PID. I have not seen numeric...

It does look like a PID. I have not seen numeric identifiers for any other exposed entity in a cluster.
Forum: General 04-06-2015, 05:12 AM
Replies: 5
Views: 2,484
Posted By RamakrishnanRS
Angry Excessive spam from multiple accounts based out of Korea

There have been nearly a 1000 posts from multiple user accounts across sub-forums that are all in Korean and are definitely spam.

Does the community not have a verification procedure for new...
Forum: Bioinformatics 06-13-2013, 10:29 AM
Replies: 3
Views: 2,523
Posted By RamakrishnanRS
Hi, Thank you so much for the response! ...

Hi,

Thank you so much for the response!

I'm working with Titus Brown's version of digital normalization right now - that brought the reads down from around 289 mil to 12 mil (6X2) PE reads and...
Forum: Bioinformatics 06-10-2013, 04:41 PM
Replies: 3
Views: 2,523
Posted By RamakrishnanRS
Oases assembly merge times out on a cluster

Hi,

I have run velvet-oases on k-mers 21 thru 55, and I am trying to merge the assemblies now. I tried using the velveth --> velvetg --> oases approach from the "Assembly Merging" section of the...
Forum: Bioinformatics 04-08-2013, 07:30 AM
Replies: 4
Views: 2,751
Posted By RamakrishnanRS
Thank you! I shall try that ASAP! -- Ram

Thank you! I shall try that ASAP!

--
Ram
Forum: Bioinformatics 04-08-2013, 07:19 AM
Replies: 4
Views: 2,751
Posted By RamakrishnanRS
Need help with BLAST Graphical Summary

Hi,

I'm pretty new to the Bioinformatics community, and I've just started working on a couple of projects. I need some help with BLAST - my scenario is:

I have created a custom BLAST Database...
Showing results 1 to 9 of 9

 


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