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Forum: Bioinformatics 05-29-2015, 01:45 AM
Replies: 1
Views: 1,586
Posted By mm.perrineau
Question How to know if a SNP is non synonymous using the genome sequence and the gff3 file?

Hi everyone,
Everything is in the title: How to know if a SNP is non synonymous using the genome sequence and the gff3 file?
I have no other information than the SNP position in the genome, the...
Forum: Bioinformatics 10-30-2013, 12:45 PM
Replies: 10
Views: 4,340
Posted By mm.perrineau
Still need help

Hello everybody,
I really need to manage to make a phylogenetic tree with my SNP.
Because i am not bio-informaticien i used clcgenomic to "map and call" my SNPs.
Now i have a file which look like:...
Forum: De novo discovery 01-17-2013, 12:14 PM
Replies: 2
Views: 2,553
Posted By mm.perrineau
I will be crazy: Help about SNPs and tree!!!!

Hi,

Somebody can help me????
I will be crazy: I am not bioinformaticien and i have to make a phylogenetic tree reflecting the genetic distance between 4 strains...
I have one strain well...
Forum: Bioinformatics 01-17-2013, 11:55 AM
Replies: 2
Views: 3,339
Posted By mm.perrineau
Hi Salmon, How do you make your SNPs tree? ...

Hi Salmon,

How do you make your SNPs tree?

Thank you

MM
Forum: Bioinformatics 01-17-2013, 11:53 AM
Replies: 10
Views: 13,671
Posted By mm.perrineau
Hi, No idea how construct phylogenetic tree...

Hi,
No idea how construct phylogenetic tree using SNPs ???
MM
Forum: RNA Sequencing 01-15-2013, 09:07 AM
Replies: 1
Views: 1,555
Posted By mm.perrineau
rRNA identification tools or information PLEASE!

Hi everybody,

I identified in my genome (by blast) 1 contig which is the rRNA genome.

Now, I am searching for tools able to tell me where is exactly all the different part: i mean the...
Forum: Bioinformatics 12-19-2012, 04:07 PM
Replies: 10
Views: 4,340
Posted By mm.perrineau
Hi everybody, Me too i really need and answer...

Hi everybody,
Me too i really need and answer !!!!!!!

I have the reads from 4 DNA diploid strains... One genome de reference well annotated...
I made a SNPs calling with CLC and a Venn diagram...
Forum: De novo discovery 12-11-2012, 02:53 PM
Replies: 3
Views: 1,898
Posted By mm.perrineau
Thank you !!!

Thank you !!!
Forum: Bioinformatics 12-11-2012, 02:46 PM
Replies: 3
Views: 4,171
Posted By mm.perrineau
Helllllppppp PLEASE

I have exactly the same question !!!!!
Somebody have the answer ???
Forum: Bioinformatics 12-11-2012, 02:05 PM
Replies: 0
Views: 1,587
Posted By mm.perrineau
Conversion file .dat (Blast2GO) into GOA file

Hello everybody,

I have a old Gene Ontology file from Blast2GO (.dat) made by a previous collegue and I would like to convert it in a GOA (Gene Ontology Annotation) format to use it with CLC...
Forum: De novo discovery 09-14-2012, 08:34 AM
Replies: 3
Views: 1,898
Posted By mm.perrineau
Question How compare together 3 partial genomes?

Hi everybody,

First, I just begin a new post-doc and i never never do some genomic (or transcriptomic) before.
And in my lab, the bioinformatic guys don't have the time to help me.
So, i will...
Forum: Illumina/Solexa 09-12-2012, 07:50 AM
Replies: 1
Views: 4,572
Posted By mm.perrineau
Question Adapter Trimming Nextera

Hi,
First, I's my first time in the sequencing world. I just begin a new post-doc, with totally new subject and totally new tools.
SO, I NEED YOU !!!!

I sequenced my two first genome (20Mbp...
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