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Admin: Pierre Lindenbaum

gravatar for Pierre Lindenbaum
Reputation:
110,700
Status:
Trusted
Location:
France/Nantes/Institut du Thorax - INSERM UMR1087
Website:
http://plindenbaum.blo...
Twitter:
yokofakun
Scholar ID:
Google Scholar Page
Last seen:
6 days, 21 hours ago
Joined:
8 years, 5 months ago
Email:
p**********@yahoo.fr

Bioinformatics , Genetics

http://twitter.com/yokofakun

http://plindenbaum.blogspot.com

https://github.com/lindenb/jvarkit

 

 

Posts by Pierre Lindenbaum

<prev • 7,618 results • page 1 of 762 • next >
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Answer: A: How to get 1000 Genomes data in bulk?
... The following java program should do the trick: https://gist.github.com/lindenb/76d85f60cb3bc1f1b2adb6eab6492cbf ...
written 7 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: Which are the regulatory regions among the following?
... terms under http://www.sequenceontology.org/browser/current_svn/term/SO:0001566 Accession Name Definition DB_Xrefs Parents Children SO:0001782 TF_binding_site_variant A sequence variant located within a transcription factor binding site. SO:0001566 SO:0001566 regulatory_region_variant ...
written 8 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: How Can I Count Snps In My Final Vcf Files
... > I want to know what the meaning of any of the terms in the picture is? https://samtools.github.io/hts-specs/VCFv4.3.pdf ...
written 9 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: How Can I Count Snps In My Final Vcf Files
... > Please describe the details in the photo for me. how is it related to your original question ? Are you sure you're using the correct terms ? Each line of the VCF is a VARIANT. A Variant can be a SNP or an INDEL or etc... The intersection of the Variant and the Samples' names is a GENOTYPE. ...
written 9 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: VCF filtering based on AB (Allele-Balance) tag
... I see. Your question is not clear to me. You have a AB value in the INFO column but I don't understand why you say: " homozygous calls will also be kept in vcf" ...
written 10 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: VCF filtering based on AB (Allele-Balance) tag
... duplicate: https://www.biostars.org/p/319148/ ...
written 10 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: Individual VCF files from main VCF file
... it creates one VCF file per sample in original file ...
written 11 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: BAM to FASTQ picard or samtools
... Hello anoops! It appears that your post has been cross-posted to another site: http://seqanswers.com/forums/showthread.php?t=83934 This is typically not recommended as it runs the risk of annoying people in both communities. ...
written 11 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: Calculate average mapping quality at a position
... got it , thanks ...
written 11 days ago by Pierre Lindenbaum ♦ 111k
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Comment: C: Calculate average mapping quality at a position
... aren't you mixing up MAPQ mapping qualities and read qualities ? ...
written 11 days ago by Pierre Lindenbaum ♦ 111k

Latest awards to Pierre Lindenbaum

Scholar 7 days ago, created an answer that has been accepted. For A: How to determine percentage missing genotypes in VCF/BCF?
Teacher 7 days ago, created an answer with at least 3 up-votes. For A: How Can I Get The Human Chromosome Centromere Position And Chromosome Length In
Popular Question 11 days ago, created a question with more than 1,000 views. For samtools 1.0 'index' : CSI index vs BAI index ?
Teacher 12 days ago, created an answer with at least 3 up-votes. For A: Automatically Getting The Ncbi Taxonomy Id From The Genbank Identifier
Good Answer 13 days ago, created an answer that was upvoted at least 5 times. For A: Automatically Getting The Ncbi Taxonomy Id From The Genbank Identifier
Appreciated 13 days ago, created a post with more than 5 votes. For Biostars based Q&A for Bioconductor: http://support.bioconductor.org
Scholar 13 days ago, created an answer that has been accepted. For A: How to determine percentage missing genotypes in VCF/BCF?
Teacher 13 days ago, created an answer with at least 3 up-votes. For A: Automatically Getting The Ncbi Taxonomy Id From The Genbank Identifier
Scholar 14 days ago, created an answer that has been accepted. For A: How to determine percentage missing genotypes in VCF/BCF?
Appreciated 16 days ago, created a post with more than 5 votes. For Biostars based Q&A for Bioconductor: http://support.bioconductor.org
Commentator 18 days ago, created a comment with at least 3 up-votes. For C: Difference Analysis by shell scripting
Good Answer 18 days ago, created an answer that was upvoted at least 5 times. For A: Automatically Getting The Ncbi Taxonomy Id From The Genbank Identifier
Teacher 18 days ago, created an answer with at least 3 up-votes. For A: Automatically Getting The Ncbi Taxonomy Id From The Genbank Identifier
Scholar 18 days ago, created an answer that has been accepted. For A: How to determine percentage missing genotypes in VCF/BCF?
Appreciated 19 days ago, created a post with more than 5 votes. For Biostars based Q&A for Bioconductor: http://support.bioconductor.org
Teacher 19 days ago, created an answer with at least 3 up-votes. For A: Automatically Getting The Ncbi Taxonomy Id From The Genbank Identifier
Scholar 19 days ago, created an answer that has been accepted. For A: How to determine percentage missing genotypes in VCF/BCF?
Teacher 21 days ago, created an answer with at least 3 up-votes. For A: Difference Between Gene And Transcript In The Datasets
Teacher 22 days ago, created an answer with at least 3 up-votes. For A: Difference Between Gene And Transcript In The Datasets
Scholar 22 days ago, created an answer that has been accepted. For A: How to download sample attributes (sample metadata) file from the European nucle
Appreciated 25 days ago, created a post with more than 5 votes. For Biostars based Q&A for Bioconductor: http://support.bioconductor.org
Commentator 25 days ago, created a comment with at least 3 up-votes. For C: Any User-Friendly (With Gui) Programs For Computing Watterson'S Estimate Using S
Teacher 26 days ago, created an answer with at least 3 up-votes. For A: Difference Between Gene And Transcript In The Datasets
Scholar 26 days ago, created an answer that has been accepted. For A: How to download sample attributes (sample metadata) file from the European nucle
Commentator 26 days ago, created a comment with at least 3 up-votes. For C: Any User-Friendly (With Gui) Programs For Computing Watterson'S Estimate Using S
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