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Forum: Bioinformatics 05-10-2013, 08:25 AM
Replies: 2
Views: 2,798
Posted By avm
Thanks! I managed. Ohh, well the analysis is on...

Thanks!
I managed. Ohh, well the analysis is on my NGS data ;)
Forum: Bioinformatics 05-10-2013, 02:06 AM
Replies: 2
Views: 2,798
Posted By avm
Fu's and Tajima's using Arlequin

Hi,

I am struggling with running neutrality tests using Arlequin. There is little to be found on the net unfortunately...

So I have 25 DNA sequences coding for a certain gene (9 alleles). I...
Forum: Bioinformatics 01-06-2013, 10:42 AM
Replies: 0
Views: 1,411
Posted By avm
BLAST on multifasta files

I have assembled e. coli genomes in which I want to search for a list of genes.

I have access to a script which takes a multifasta file of genes as the database and makes a blast comparison. The...
Forum: General 06-17-2012, 12:29 PM
Replies: 0
Views: 1,280
Posted By avm
Software to identify transcription factors in ETEC (e. coli)?

I want to run a software that can identify TFs for me in ETEC (E. coli) sequences, which softwares do you recommend and why? Is it easy to use?

The sequences are from de novo assembly with Velvet...
Forum: General 05-30-2012, 11:58 PM
Replies: 1
Views: 1,748
Posted By avm
Glimmer3

I have a bunch of sequences assembled with Velvet, can I use the assembly data (contigs) to run GLIMMER3 directly?

Cheers!
Forum: Introductions 05-06-2012, 09:45 PM
Replies: 22
Views: 29,217
Posted By avm
Thank you for explaining and for quick answers!!

Thank you for explaining and for quick answers!!
Forum: Introductions 05-06-2012, 09:32 PM
Replies: 22
Views: 29,217
Posted By avm
Okey, I have reads of 75 bp but the mean...

Okey,

I have reads of 75 bp but the mean insert size is in one sample 239 bp. Is the barcode that long?

Thank you for making it more clear!
Forum: Introductions 05-06-2012, 12:08 PM
Replies: 22
Views: 29,217
Posted By avm
Question Read lengths, inserts, fragment size...

Hi,

I am new in sequencing and bioinformatics and trying to get the terms right.

I am doing WGS of e. coli genomes on Illumina HiSeq machines.

Read length: Is that the length of the DNA...
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