User: pierre.peterlongo

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600
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France
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http://people.rennes.i...
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pierre350d
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1 month, 1 week ago
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4 years, 1 month ago
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Posts by pierre.peterlongo

<prev • 83 results • page 1 of 9 • next >
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Comment: C: Problem with DiscoSNP KISSREADS module
... This is actually a solution. The original call to discoSnp from Amel was not using correctly the argument for including read sets. This is why I developed here the way of using this argument. ...
written 9 months ago by pierre.peterlongo600
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Answer: A: Problem with DiscoSNP KISSREADS module
... Hi Amel, hi all, Following an email discussion we found out that discoSnp was called using the following command: `~/DiscoSnp/run_discoSnp++.sh -r filename1.fastq.gz filename2.fastq.gz -out output_SNP` As expressed in the doc (*doc* directory) the read set(s) to use should be defined using a * ...
written 9 months ago by pierre.peterlongo600
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Answer: A: Problem compiling DiscoSNP
... Hi,  Sorry for the inconvenience. You don't need to be root to install discoSnp, the problem comes from something else. I never met the "Unmatch" problem.  Do you have cmake installed on the cluster?   What is your c++ compiler version?  Would you mind sending me exactly the commands you typed a ...
written 13 months ago by pierre.peterlongo600
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Comment: C: DiscoSnp becomes DiscoSnp++
... Hi Annick,    Thanks for your message and your patience :)  disco finds variants surrounded by at least k nucleotides left and right. By default, k=31 explaining why disco does not find results on your example.   Pierre ...
written 13 months ago by pierre.peterlongo600
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Comment: C: DiscoSnp++ Installation Problem
... Hi ! I'm discovering both your problem and its solution! Happy you fixed the issue, and sorry for this late reply :)   Pierre ...
written 14 months ago by pierre.peterlongo600
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Comment: C: DiscoSnp++ Installation Problem
... Hi Annick, Sorry for the trouble; Would you mind copying the compilation error message here ? ...
written 14 months ago by pierre.peterlongo600
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Comment: C: VCF file with refrence genome in Discosnp is epmty
... Right, thanks.  We maybe identified this problem that may be due to an exception in the sam output. Would you mind sending me the .sam file that had been generated during your process?   Best regards,  Pierre ...
written 14 months ago by pierre.peterlongo600
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Comment: C: VCF file with refrence genome in Discosnp is epmty
... Hi Hanan,    Sorry for this issue. Could you indicate the discoSnp version generating this issue ? ...
written 14 months ago by pierre.peterlongo600
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Answer: A: 15 billions reads ... how long ?
... Hi, Thanks for your message Sebastien. The number of read sets is the one you used as input (in your file of file provided with the -r option). Currently, the kissread2 phase is the longuest one. We are looking for some ways of making this faster. Pierre ...
written 15 months ago by pierre.peterlongo600
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Comment: C: DiscoSNP parameters for complex genomes with reads starting only at specific res
... Hi, If I were you, I'd make two tries, one with b 1 and if you're expecting more variants, retry with b 2. In both cases, in your context, you may apply post treatment filters. I'd let the other default parameters. Pierre   ...
written 15 months ago by pierre.peterlongo600

Latest awards to pierre.peterlongo

Teacher 4 months ago, created an answer with at least 3 up-votes. For A: How to get the histogram of a graph
Popular Question 7 months ago, created a question with more than 1,000 views. For DiscoSnp becomes DiscoSnp++
Scholar 8 months ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Scholar 16 months ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Scholar 16 months ago, created an answer that has been accepted. For A: discosnp contig extension on test dataset
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: Inferring Novel Exons From Rna-Seq Data
Appreciated 17 months ago, created a post with more than 5 votes. For DiscoSnp++ 2.1.2 release: now genotypes and creates VCFs
Scholar 18 months ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Inferring Novel Exons From Rna-Seq Data
Supporter 19 months ago, voted at least 25 times.
Popular Question 19 months ago, created a question with more than 1,000 views. For [no longer vacant] Postdoctoral Position (18 Months) - Inria Rennes - France
Popular Question 20 months ago, created a question with more than 1,000 views. For Mapsembler2 targeted micro assembly and visualization of the local assembly graph
Popular Question 20 months ago, created a question with more than 1,000 views. For Postdoctoral Position (18 Months) - Inria Rennes - France
Scholar 20 months ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Scholar 21 months ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Scholar 23 months ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Scholar 24 months ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Appreciated 24 months ago, created a post with more than 5 votes. For discoSnp - reference-free finding of isolated SNPs from non assembled reads
Scholar 2.2 years ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Scholar 2.2 years ago, created an answer that has been accepted. For A: discosnp contig extension on test dataset
Appreciated 2.5 years ago, created a post with more than 5 votes. For discoSnp - reference-free finding of isolated SNPs from non assembled reads
Scholar 2.5 years ago, created an answer that has been accepted. For A: Mapsembler2 targeted micro assembly and visualization of the local assembly grap
Teacher 2.6 years ago, created an answer with at least 3 up-votes. For A: Inferring Novel Exons From Rna-Seq Data

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