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Search: Posts Made By: le.nono
Forum: Bioinformatics 02-14-2014, 05:47 AM
Replies: 366
Views: 205,715
Posted By le.nono
My problem is solved thank you! Your comment...

My problem is solved thank you! Your comment helped me to investigate, and came from my user Ubuntu access rights.
Forum: Bioinformatics 02-14-2014, 01:03 AM
Replies: 366
Views: 205,715
Posted By le.nono
Well I've reinstall fastqc, still have the same...

Well I've reinstall fastqc, still have the same error. I've tried on Galaxy, with the same file it works fine...
Forum: Bioinformatics 02-14-2014, 12:51 AM
Replies: 366
Views: 205,715
Posted By le.nono
Got it thank you Simon!

Got it thank you Simon!
Forum: Bioinformatics 02-14-2014, 12:13 AM
Replies: 366
Views: 205,715
Posted By le.nono
Thank you but it didn't help. The error is...

Thank you but it didn't help. The error is different I don't have a graphical problem, it's more about a class that java doesn't find when it wants to create the HTML fastqc file. Anybody help ?
Forum: Bioinformatics 02-13-2014, 01:18 PM
Replies: 366
Views: 205,715
Posted By le.nono
Hello there I can't solve that problem by...

Hello there

I can't solve that problem by myself I have this error , I have no idea to solve it. I would need some good advice. Here it is below
Thx.

nono@nono-VGN-NS31M-W:~/FastQC$ fastqc...
Forum: Ion Torrent 07-15-2013, 11:32 PM
Replies: 2
Views: 4,170
Posted By le.nono
even with a rRNA depletion step ?

even with a rRNA depletion step ?
Forum: Bioinformatics 07-10-2013, 01:33 PM
Replies: 3
Views: 1,865
Posted By le.nono
Thank you !

Thank you !
Forum: Bioinformatics 07-10-2013, 07:22 AM
Replies: 3
Views: 1,865
Posted By le.nono
bamcheck

Hi,

Does anybody knows where (package) I can find the bamcheck program ? This is a program who collects stats from bam files.

Thank you
A
Forum: Ion Torrent 07-10-2013, 03:50 AM
Replies: 2
Views: 4,170
Posted By le.nono
PGM for mtDNA transcriptome

Hi,

Still new in the field but my lab is about to acquire a PGM or a Proton. our projects turn around the mitochondrie. I'd like to know if a PGM ihas enough capacity enough with the 318 chips...
Forum: RNA Sequencing 06-17-2013, 11:59 AM
Replies: 13
Views: 1,945
Posted By le.nono
Ok it s becoming clearer now. I really need these...

Ok it s becoming clearer now. I really need these data I use so i m gonna stick to them even if it s harder. I m gonna try to look for in the literature some RNA Seq with SAGE preps I think its been...
Forum: RNA Sequencing 06-17-2013, 10:36 AM
Replies: 13
Views: 1,945
Posted By le.nono
I m gonna try to trim those 4bp first map the...

I m gonna try to trim those 4bp first map the reads. I definitely need further informations on the reads... I dont much about those 16 bp adapter its just written in the abstract coming with the...
Forum: RNA Sequencing 06-17-2013, 08:20 AM
Replies: 13
Views: 1,945
Posted By le.nono
Maybe a better quality and size one. ...

Maybe a better quality and size one.

http://imageshack.us/photo/my-images/844/q6c.png/
Forum: RNA Sequencing 06-17-2013, 08:18 AM
Replies: 13
Views: 1,945
Posted By le.nono
no I don't have this information. ...

no I don't have this information.

http://imagik.fr/thumb/32854.jpeg (http://imagik.fr/view/32854)
Forum: RNA Sequencing 06-17-2013, 08:01 AM
Replies: 13
Views: 1,945
Posted By le.nono
I don't think so the reads are very short. What...

I don't think so the reads are very short. What do you have in mind?
Forum: RNA Sequencing 06-17-2013, 07:58 AM
Replies: 13
Views: 1,945
Posted By le.nono
Quality score histogrammes look very good for...

Quality score histogrammes look very good for each sample.
Forum: RNA Sequencing 06-17-2013, 07:56 AM
Replies: 13
Views: 1,945
Posted By le.nono
They say there is a 16 bp adaptor on each read,...

They say there is a 16 bp adaptor on each read, but my reads are at the correct length 35 bp on the QC. Do I really need to trim them?
Forum: RNA Sequencing 06-17-2013, 07:18 AM
Replies: 13
Views: 1,945
Posted By le.nono
Unmapped ratio very high on mouse genome

Hi,
My problem regards RNA-Seq data. I've downloaded public data (SAGE libs w/ 6 different samples from mouse liver ) to analyse using ArrayStudio. When I try to map them on the B38 mus musculus...
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