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Comment: Comment: 012 matrix variation for multiple alleles
4 weeks ago by sbstevenlee ▴ 480
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Comment: Comment: 012 matrix variation for multiple alleles
4 weeks ago by sbstevenlee ▴ 480
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Comment: Comment: 012 matrix variation for multiple alleles
4 weeks ago by sbstevenlee ▴ 480
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1.0k
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Comment: Comment: 012 matrix variation for multiple alleles
4 weeks ago by sbstevenlee ▴ 480
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Comment: Comment: Calling star alleles with PGx-POP on my VCF file
4 months ago by sbstevenlee ▴ 480
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Answer: Answer: Generating Depth of Coverage files from vcf.
5 months ago by sbstevenlee ▴ 480
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Comment: Comment: Why isn't GWAS used in oncology?
5 months ago by sbstevenlee ▴ 480
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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 ▴ 480
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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 ▴ 480
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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 ▴ 480
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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 ▴ 480
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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 ▴ 480
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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 ▴ 480
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0
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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 ▴ 480
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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 ▴ 480
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Answer: Answer: Missing data per site
9 months ago by sbstevenlee ▴ 480
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1
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451
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Comment: Comment: Hierarchical clustering in r
9 months ago by sbstevenlee ▴ 480
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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 2.8k • written 10 months ago by ▴ 480
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Answer: Answer: Weird behavior of `--max-depth` argument from `bcftools mpileup` command when it
10 months ago by sbstevenlee ▴ 480
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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 ▴ 480
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1
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1.0k
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Answer: Answer: BCFtools allele frequency for specific population
10 months ago by sbstevenlee ▴ 480
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Comment: Comment: Methodological problems are extremely common for enrichment analysis - beware th
10 months ago by sbstevenlee ▴ 480
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1.1k
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Comment: Comment: Need help to read samples from PyVCF
11 months ago by sbstevenlee ▴ 480
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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
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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
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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
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1
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2.1k
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Comment: Comment: convert csv file to bed file
11 months ago by sbstevenlee ▴ 480
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1
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2.1k
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Comment: Comment: convert csv file to bed file
11 months ago by sbstevenlee ▴ 480
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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 ▴ 480
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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 ▴ 480
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1.0k
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Comment: Comment: Germline variant calling from BAM without reference
12 months ago by sbstevenlee ▴ 480
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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
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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
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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 ▴ 480
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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
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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
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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
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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
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1
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1.0k
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Answer: Answer: 012 matrix variation for multiple alleles
13 months ago by sbstevenlee ▴ 480
1
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2
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991
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Discordant results from the Scanpy tutorial "Preprocessing and clustering 3k PBMCs"
scanpy
updated 13 months ago by 10k • written 13 months ago by ▴ 480
1
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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
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0
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671
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Answer: Answer: vcftools 012 apparently is giving me wrong genotypes
14 months ago by sbstevenlee ▴ 480
2
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0
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1.2k
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Answer: Answer: struggling in using bcftools to set variants to missing
14 months ago by sbstevenlee ▴ 480
0
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0
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665
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Answer: Answer: Shared variants
14 months ago by sbstevenlee ▴ 480
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0
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472
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Answer: Answer: How to find differentially mutated genes between two groups of samples?
14 months ago by sbstevenlee ▴ 480
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1
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1.0k
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Answer: Answer: Alelle frequency plot
14 months ago by sbstevenlee ▴ 480
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0
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472
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Answer: Answer: fuc.pyvcf Attribute Error
14 months ago by sbstevenlee ▴ 480
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0
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5.4k
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Answer: Answer: How to filter a VCF file with a list of CHR or contig IDs?
15 months ago by sbstevenlee ▴ 480
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0
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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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