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Comment:
Comment: 012 matrix variation for multiple alleles
4 weeks ago by
sbstevenlee
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Comment:
Comment: 012 matrix variation for multiple alleles
4 weeks ago by
sbstevenlee
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Comment:
Comment: 012 matrix variation for multiple alleles
4 weeks ago by
sbstevenlee
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Comment:
Comment: 012 matrix variation for multiple alleles
4 weeks ago by
sbstevenlee
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Comment:
Comment: Calling star alleles with PGx-POP on my VCF file
4 months ago by
sbstevenlee
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655
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Answer:
Answer: Generating Depth of Coverage files from vcf.
5 months ago by
sbstevenlee
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1.4k
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Comment:
Comment: Why isn't GWAS used in oncology?
5 months ago by
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Comment:
Comment: Calling star alleles with PGx-POP on my VCF file
5 months ago by
sbstevenlee
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1.1k
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Comment:
Comment: Calling star alleles with PGx-POP on my VCF file
5 months ago by
sbstevenlee
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1.1k
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Comment:
Comment: Calling star alleles with PGx-POP on my VCF file
6 months ago by
sbstevenlee
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1.1k
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Answer:
Answer: Calling star alleles with PGx-POP on my VCF file
6 months ago by
sbstevenlee
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634
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Comment:
Comment: If I need to repeatedly perform variant calling from BAM for single gene only, d
8 months ago by
sbstevenlee
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634
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Comment:
Comment: If I need to repeatedly perform variant calling from BAM for single gene only, d
8 months ago by
sbstevenlee
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634
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Comment:
Comment: If I need to repeatedly perform variant calling from BAM for single gene only, d
8 months ago by
sbstevenlee
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3
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6
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634
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If I need to repeatedly perform variant calling from BAM for single gene only, do I really need entire reference FASTA?
variant-calling
bam
vcf
bcftools
fasta
8 months ago by
sbstevenlee
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763
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Answer:
Answer: Missing data per site
9 months ago by
sbstevenlee
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451
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Comment:
Comment: Hierarchical clustering in r
9 months ago by
sbstevenlee
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2
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2
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579
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Weird behavior of `--max-depth` argument from `bcftools mpileup` command when its value is too low
--max-depth
bcftools
mpileup
updated 10 months ago by
John Marshall
2.8k • written 10 months ago by
sbstevenlee
▴ 480
1
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579
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Answer:
Answer: Weird behavior of `--max-depth` argument from `bcftools mpileup` command when it
10 months ago by
sbstevenlee
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0
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0
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639
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Answer:
Answer: Vcf : remove variant absent in affected sample
10 months ago by
sbstevenlee
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1.0k
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Answer:
Answer: BCFtools allele frequency for specific population
10 months ago by
sbstevenlee
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0
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3.4k
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Comment:
Comment: Methodological problems are extremely common for enrichment analysis - beware th
10 months ago by
sbstevenlee
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1.1k
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Comment:
Comment: Need help to read samples from PyVCF
11 months ago by
sbstevenlee
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2
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1
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1.1k
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Answer:
Answer: Need help to read samples from PyVCF
11 months ago by
sbstevenlee
▴ 480
0
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0
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325
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Answer:
Answer: vcf file per-sample comparison in a region
11 months ago by
sbstevenlee
▴ 480
2
votes
1
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796
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Answer:
Answer: Strange error when using gzip.open with a VCF file
11 months ago by
sbstevenlee
▴ 480
0
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2.1k
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Comment:
Comment: convert csv file to bed file
11 months ago by
sbstevenlee
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2.1k
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Comment:
Comment: convert csv file to bed file
11 months ago by
sbstevenlee
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1
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2.1k
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Answer:
Answer: convert csv file to bed file
11 months ago by
sbstevenlee
▴ 480
2
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1
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396
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Answer:
Answer: Understanding haplotype notations (output from EAGLE2)
11 months ago by
sbstevenlee
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0
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0
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1.0k
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Comment:
Comment: Germline variant calling from BAM without reference
12 months ago by
sbstevenlee
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1
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1.0k
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Comment:
Comment: Germline variant calling from BAM without reference
12 months ago by
sbstevenlee
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1
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4
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1.0k
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Germline variant calling from BAM without reference
vcf
calling
bam
variant
12 months ago by
sbstevenlee
▴ 480
1
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1
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795
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Answer:
Answer: VCF using Python
12 months ago by
sbstevenlee
▴ 480
0
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0
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702
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Answer:
Answer: Finding variants common to subset of samples in multi-sample VCF
13 months ago by
sbstevenlee
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0
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1.4k
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Comment:
Comment: Aspera Connect problem with "ascp: Taget address not available"
13 months ago by
sbstevenlee
▴ 480
1
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2
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1.4k
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Aspera Connect problem with "ascp: Taget address not available"
ascp
Aspera
13 months ago by
sbstevenlee
▴ 480
0
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0
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3.6k
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Comment:
Comment: Download of FASTQ files from the European Nucleotide Archive (ENA) using Aspera
13 months ago by
sbstevenlee
▴ 480
0
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1
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3.6k
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Comment:
Comment: Download of FASTQ files from the European Nucleotide Archive (ENA) using Aspera
13 months ago by
sbstevenlee
▴ 480
2
votes
1
reply
1.0k
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Answer:
Answer: 012 matrix variation for multiple alleles
13 months ago by
sbstevenlee
▴ 480
1
vote
2
replies
991
views
Discordant results from the Scanpy tutorial "Preprocessing and clustering 3k PBMCs"
scanpy
updated 13 months ago by
rpolicastro
10k • written 13 months ago by
sbstevenlee
▴ 480
1
vote
1
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991
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Answer:
Answer: Discordant results from the Scanpy tutorial "Preprocessing and clustering 3k PBM
13 months ago by
sbstevenlee
▴ 480
1
vote
0
replies
671
views
Answer:
Answer: vcftools 012 apparently is giving me wrong genotypes
14 months ago by
sbstevenlee
▴ 480
2
votes
0
replies
1.2k
views
Answer:
Answer: struggling in using bcftools to set variants to missing
14 months ago by
sbstevenlee
▴ 480
0
votes
0
replies
665
views
Answer:
Answer: Shared variants
14 months ago by
sbstevenlee
▴ 480
0
votes
0
replies
472
views
Answer:
Answer: How to find differentially mutated genes between two groups of samples?
14 months ago by
sbstevenlee
▴ 480
2
votes
1
reply
1.0k
views
Answer:
Answer: Alelle frequency plot
14 months ago by
sbstevenlee
▴ 480
0
votes
0
replies
472
views
Answer:
Answer: fuc.pyvcf Attribute Error
14 months ago by
sbstevenlee
▴ 480
0
votes
0
replies
5.4k
views
Answer:
Answer: How to filter a VCF file with a list of CHR or contig IDs?
15 months ago by
sbstevenlee
▴ 480
1
vote
0
replies
3.0k
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Comment:
Comment: How to write a Python script to edit a .vcf file?
15 months ago by
sbstevenlee
▴ 480
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