SEQanswers

Go Back   SEQanswers > Search Forums

Showing results 1 to 11 of 11
Search took 0.00 seconds.
Search: Posts Made By: Polecat
Forum: Bioinformatics 11-15-2015, 07:15 PM
Replies: 2
Views: 2,405
Posted By Polecat
Yes you can make input profiles from MG-RAST and...

Yes you can make input profiles from MG-RAST and use them in STAMP. It tell you how to in the STAMP manual.
Forum: Bioinformatics 09-17-2015, 09:12 PM
Replies: 5
Views: 3,061
Posted By Polecat
I did find out that I can export from the...

I did find out that I can export from the individual .rma files for each of my samples for a select COG or taxa. The export function for some stuff appears to be unavailable when you're working with...
Forum: Bioinformatics 08-27-2015, 08:38 PM
Replies: 5
Views: 3,061
Posted By Polecat
here in lies the problem. When I try to do...

here in lies the problem. When I try to do exactly what you have listed about Mina for the COG viewer the Export -> Reads tab is greyed out and I can't hit it. Only the export csv, biome, metadata...
Forum: Bioinformatics 08-27-2015, 08:03 PM
Replies: 1
Views: 1,304
Posted By Polecat
I too would like to know how to do this, so any...

I too would like to know how to do this, so any answers are helpful.
Forum: Bioinformatics 06-25-2015, 06:42 PM
Replies: 5
Views: 3,061
Posted By Polecat
I think from RTM that what I need to do it go to...

I think from RTM that what I need to do it go to File -> Export Alignment to get this info but I can't do this as I get a java.io.IOException error. Anyone know if this is due to my supercomputer...
Forum: Bioinformatics 06-25-2015, 12:09 AM
Replies: 5
Views: 3,061
Posted By Polecat
Did anyone have an answer for this as I have the...

Did anyone have an answer for this as I have the same question? I am doing soil metatranscriptomics and in MEGAN 5 I have a particular KEGG ID I am interested in and want to see the taxa of the...
Forum: Metagenomics 04-27-2015, 09:29 PM
Replies: 2
Views: 2,403
Posted By Polecat
I had that issue. I had only asked for the best...

I had that issue. I had only asked for the best hit. The LCA analysis in MEGAN requires a minimum of 5 best hits to work.
Forum: Bioinformatics 02-09-2015, 07:15 PM
Replies: 11
Views: 8,550
Posted By Polecat
here we go again..

I know now my issue was not having enough blast hits to let the LCA algorithm work.
Forum: Bioinformatics 10-07-2014, 05:16 PM
Replies: 1
Views: 1,893
Posted By Polecat
riboPicker for rRNA removal from sequence data

hi,
I have used Ribopicker online in the past to remove any remaining rRNA sequences from the mRNA enriched libraries I made from soil metatranscriptomes sequenced on an Illumina HiSeq using a...
Forum: Metagenomics 10-28-2012, 06:43 PM
Replies: 7
Views: 4,357
Posted By Polecat
Becareful if using MEGAN that you don't waste...

Becareful if using MEGAN that you don't waste time by doing your blasts against the wrong database.

MEGAN likes NCBI taxonomy for BLASTN, BLASTX or BLASTP to compare against NCBI-NT, NCBI-NR or...
Forum: Bioinformatics 10-14-2012, 10:18 PM
Replies: 11
Views: 8,550
Posted By Polecat
I have been having this problem for ages too and...

I have been having this problem for ages too and am starting to bang my head on the wall.

I can use the SEED and Kegg viewers when I load an example file from the MEGAN site.
I can see...
Showing results 1 to 11 of 11

 

All times are GMT -8. The time now is 08:05 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2022, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO