Admin: Pierre Lindenbaum
Pierre Lindenbaum ♦ 132k
- Reputation:
- 132,480
- Status:
- Trusted
- Location:
- France/Nantes/Institut du Thorax - INSERM UMR1087
- Website:
- http://plindenbaum.blo...
- Twitter:
- yokofakun
- Scholar ID:
- Google Scholar Page
- Last seen:
- 10 minutes ago
- Joined:
- 10 years, 10 months ago
- Email:
- p**********@yahoo.fr
Posts by Pierre Lindenbaum
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... what was your command ? what were those two variants ? ...
written 1 hour ago by
Pierre Lindenbaum ♦ 132k
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... `zcat+gzip`. Don't . just use [cat][1].
[1]: https://www.biostars.org/p/81924/ ...
written 5 hours ago by
Pierre Lindenbaum ♦ 132k
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60
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Comment:
C: BWA index is not working
... I see no error here.
what is the output of
ls -la ref_genome ...
written 15 hours ago by
Pierre Lindenbaum ♦ 132k
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58
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1
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Comment:
C: Subseq a FASTA file
... https://www.biostars.org/p/140118/ ...
written 16 hours ago by
Pierre Lindenbaum ♦ 132k
3
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39
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Answer:
C: VarScan output file genotypes
... [degenerate notation][1] ?
[1]: https://en.wikipedia.org/wiki/Nucleic_acid_notation#IUPAC_notation ...
written 18 hours ago by
Pierre Lindenbaum ♦ 132k
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... > Could this allow such calls?
no, it's not supported by the hsjdk library. https://github.com/samtools/htsjdk/blob/master/src/main/java/htsjdk/variant/variantcontext/Allele.java#L385 ...
written 18 hours ago by
Pierre Lindenbaum ♦ 132k
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30
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Comment:
C: Concatenate VCF files
...
Hello zak !
Questions similar to yours can already be found at:
Concatenate All Vcf.Gz Files
How to combine chromosome vcf files
VCF merge or concatenate?
We have closed your question to allow us to keep similar content in the same thread.
If you disagree with this please ...
written 1 day ago by
Pierre Lindenbaum ♦ 132k
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44
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... paste <(cat fq1 | paste - - - - ) <(cat fq2 | paste - - - - ) | grep TGTATGTAAACTTCCGACTTCAACTGTA | tr "\t" "\n" > interleaved.fastq ...
written 1 day ago by
Pierre Lindenbaum ♦ 132k
0
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2
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2.3k
views
2
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... ask as a new question please ...
written 1 day ago by
Pierre Lindenbaum ♦ 132k
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36
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Comment:
C: Running mauveAligner in Linux
... yes but that's `module`'s job to set the correct PATH... ...
written 1 day ago by
Pierre Lindenbaum ♦ 132k
Latest awards to Pierre Lindenbaum
Scholar
8 days ago,
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For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
8 days ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Teacher
8 days ago,
created an answer with at least 3 up-votes.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
9 days ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
10 days ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Teacher
10 days ago,
created an answer with at least 3 up-votes.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
10 days ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Teacher
11 days ago,
created an answer with at least 3 up-votes.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
15 days ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
18 days ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Teacher
18 days ago,
created an answer with at least 3 up-votes.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
4 weeks ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Teacher
4 weeks ago,
created an answer with at least 3 up-votes.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
4 weeks ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
4 weeks ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Popular Question
4 weeks ago,
created a question with more than 1,000 views.
For Ngs And Recalibration
Teacher
5 weeks ago,
created an answer with at least 3 up-votes.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Scholar
5 weeks ago,
created an answer that has been accepted.
For A: How to get sample names and genotype for SNP in multi-sample VCF file
Teacher
5 weeks ago,
created an answer with at least 3 up-votes.
For A: Allele Depth (AD) / Allele Balance (AB) Filtering in GATK 4
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