SEQanswers

Go Back   SEQanswers > Search Forums


Showing results 1 to 8 of 8
Search took 0.00 seconds.
Search: Posts Made By: tamu_anand
Forum: Bioinformatics 10-31-2019, 04:12 PM
Replies: 0
Views: 738
Posted By tamu_anand
Comparing bbduk with fastp for quality and adapter trimming

Hi

Has anyone compared results and performance of bbduk vs fastp when it comes to adapter and quality trimming of fastq read files?

I realize fastp will work without providing any adapter...
Forum: Bioinformatics 08-09-2019, 07:47 AM
Replies: 8
Views: 1,475
Posted By tamu_anand
Thanks Colindaven and dcameron for your inputs -...

Thanks Colindaven and dcameron for your inputs - very much appreciated.
Forum: Bioinformatics 07-22-2019, 10:09 AM
Replies: 8
Views: 1,475
Posted By tamu_anand
Thanks GenoMax and RobP for your valuable inputs....

Thanks GenoMax and RobP for your valuable inputs.

RobP - I totally agree with you on all you have said - the most important being the last bullet below:


my filter for deciding to use a tool...
Forum: Bioinformatics 07-21-2019, 02:44 PM
Replies: 4
Views: 1,109
Posted By tamu_anand
Hi all Any inputs/recommendations on the...

Hi all

Any inputs/recommendations on the bbmap command line I am using - Post 3

Thanks in advance
Forum: Bioinformatics 07-21-2019, 12:47 PM
Replies: 8
Views: 1,475
Posted By tamu_anand
heavily used bionformatics software without publications

Hi all

I am curious to know from the Bioinformatics/Genomics/CompBio research community about popular or heavily used software that are not published?

In my opinion, BBTools from DOE JGI...
Forum: Bioinformatics 07-17-2019, 09:30 PM
Replies: 4
Views: 1,109
Posted By tamu_anand
Thanks @GenoMax for pointing me to the bbsplit...

Thanks @GenoMax for pointing me to the bbsplit thread (http://seqanswers.com/forums/showthread.php?t=41288)

To elaborate, I would like to remove chloroplast/rDNA/mito contaminants and I was...
Forum: Bioinformatics 07-16-2019, 01:00 PM
Replies: 4
Views: 1,109
Posted By tamu_anand
Has anyone used BBTools package to remove contaminants

I would like to remove mitochondrial, chloroplast and rDNA contaminants from read data using BBTools - I was wondering if anyone has used BBTools to do this and can share the generic pipeline.
...
Forum: Bioinformatics 06-03-2019, 01:46 AM
Replies: 678
Views: 184,615
Posted By tamu_anand
Has anyone used bbmap for QuantSeq Data Analysis...

Has anyone used bbmap for QuantSeq Data Analysis (more precisely the QuantSeq FWD protocol). The Lexogen website (https://www.lexogen.com/quantseq-data-analysis/) recommends bbduk for quality...
Showing results 1 to 8 of 8

 


All times are GMT -8. The time now is 03:24 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO