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0
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6
replies
1.9k
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Getting matrix of QDs from VCF file
vcf snp
updated 15 days ago by • 0 • written 6.4 years ago by ▴ 510
2
votes
1
reply
223
views
Extract read position where a base is covered, and the allele at that base
read samtools bam mapping bwa
updated 4 months ago by 127k • written 4 months ago by ▴ 510
0
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0
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9.2k
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Comment: Comment: How to download dbSNP153 vcf files in hg19/GRCH37 version
4 months ago by Jautis ▴ 510
0
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1
reply
231
views
Extract mapped SE and properly paired PE reads from a bam file
properly single bam end mapped paired
updated 10 months ago by ▴ 980 • written 10 months ago by ▴ 510
0
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1
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644
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Answer: Answer: My PCA plot looks good but i don't have differentially expressed genes
12 months ago by Jautis ▴ 510
2
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0
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466
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Comment: Comment: Should I normalize the data before or after filtering to a particular cell type?
12 months ago by Jautis ▴ 510
4
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0
replies
419
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Comment: Comment: Differntial Gene Expression analysis
12 months ago by Jautis ▴ 510
0
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0
replies
408
views
Comment: Comment: SNPs with multiple nucleotides
12 months ago by Jautis ▴ 510
2
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1
reply
408
views
Answer: Answer: SNPs with multiple nucleotides
12 months ago by Jautis ▴ 510
0
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1
reply
327
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Comment: Comment: Capture Hi-C processing yields sparse matrices
12 months ago by Jautis ▴ 510
0
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0
replies
495
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Comment: Comment: Alternatives to TMM normalization
12 months ago by Jautis ▴ 510
7
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4
replies
495
views
Alternatives to TMM normalization
voom expression R limma
12 months ago by Jautis ▴ 510
1
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0
replies
1.8k
views
Answer: Answer: How can I colour UMAP by sample batches
14 months ago by Jautis ▴ 510
0
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0
replies
960
views
Comment: Comment: single cell RNA-seq: Is there a way to tell if one dataset is more similar to an
14 months ago by Jautis ▴ 510
0
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0
replies
406
views
Comment: Comment: Can I do differential analysis without phenodata?
14 months ago by Jautis ▴ 510
3
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1
reply
597
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Answer: Answer: mutation not in RNAseq read
14 months ago by Jautis ▴ 510
1
vote
1
reply
960
views
Comment: Comment: single cell RNA-seq: Is there a way to tell if one dataset is more similar to an
14 months ago by Jautis ▴ 510
0
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0
replies
1.3k
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Comment: Comment: Merge two vcf's, keep only intersection of REF/ALT alleles
14 months ago by Jautis ▴ 510
0
votes
0
replies
226
views
Using bcftools to merge files of different individuals, getting only shared sites
vcf genotypes bcftools
14 months ago by Jautis ▴ 510
1
vote
2
replies
960
views
Answer: Answer: single cell RNA-seq: Is there a way to tell if one dataset is more similar to an
14 months ago by Jautis ▴ 510
2
votes
3
replies
775
views
Error running smartpca from eigensoft: failed to create thread
pca genotypes smartpca eigensoft
15 months ago by Jautis ▴ 510
1
vote
0
replies
775
views
Comment: Comment: Error running smartpca from eigensoft: failed to create thread
15 months ago by Jautis ▴ 510
0
votes
1
reply
775
views
Comment: Comment: Error running smartpca from eigensoft: failed to create thread
15 months ago by Jautis ▴ 510
1
vote
0
replies
594
views
Comment: Comment: Finding a sequence
15 months ago by Jautis ▴ 510
1
vote
1
reply
2.3k
views
Comment: Comment: fastqc html file
15 months ago by Jautis ▴ 510
0
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1
reply
2.6k
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Comment: Comment: multiqc could not generate results
15 months ago by Jautis ▴ 510
0
votes
0
replies
566
views
Comment: Comment: Conserved regions in multiple fasta files (multiple species)?
15 months ago by Jautis ▴ 510
0
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0
replies
2.3k
views
Comment: Comment: fastqc html file
15 months ago by Jautis ▴ 510
2
votes
2
replies
599
views
Trim 100bp PE sequencing to 50bp reads
unix bash sequencing fastq
updated 16 months ago by 21k • written 16 months ago by ▴ 510
0
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0
replies
745
views
Comment: Comment: Bam file: replace low quality bases with "N"
17 months ago by Jautis ▴ 510
2
votes
2
replies
745
views
Bam file: replace low quality bases with "N"
quality base bam
17 months ago by Jautis ▴ 510
0
votes
1
reply
1.2k
views
Comment: Comment: limma+voom flips the sign of the effect from CPM?
18 months ago by Jautis ▴ 510
1
vote
4
replies
1.2k
views
limma+voom flips the sign of the effect from CPM?
voom expression limma R
updated 18 months ago by ★ 5.6k • written 18 months ago by ▴ 510
0
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1
reply
1.1k
views
Comment: Comment: voom mean-variance plot has set of genes where variance increases with expressio
18 months ago by Jautis ▴ 510
0
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1
reply
1.1k
views
Comment: Comment: voom mean-variance plot has set of genes where variance increases with expressio
18 months ago by Jautis ▴ 510
5
votes
5
replies
1.1k
views
voom mean-variance plot has set of genes where variance increases with expression level
voom expression limma R
updated 18 months ago by ★ 5.6k • written 18 months ago by ▴ 510
0
votes
0
replies
1.5k
views
Comment: Comment: unable to impute with beagle after filtering VCF table using vcftools
22 months ago by Jautis ▴ 510
1
vote
1
reply
1.5k
views
Comment: Comment: unable to impute with beagle after filtering VCF table using vcftools
23 months ago by Jautis ▴ 510
0
votes
0
replies
710
views
Comment: Comment: Could someone help me check what genomic position is this variant nomenclature r
23 months ago by Jautis ▴ 510
0
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1
reply
2.1k
views
Comment: Comment: How to calculate percent coverage of each read for nanopore
23 months ago by Jautis ▴ 510
1
vote
0
replies
2.1k
views
Comment: Comment: How to calculate percent coverage of each read for nanopore
23 months ago by Jautis ▴ 510
0
votes
0
replies
1.1k
views
Comment: Comment: Cannot color cells with 0 expression in certain color
23 months ago by Jautis ▴ 510
0
votes
0
replies
412
views
Calculating Fst from low coverage data using genotype likelihoods
vcftools fst population_differentiation
23 months ago by Jautis ▴ 510
0
votes
0
replies
3.9k
views
Comment: C: Calculating Tajima's D from SNP frequency data
2.2 years ago by Jautis ▴ 510
0
votes
0
replies
3.5k
views
Comment: C: A strange R limma voom function mean-variance trend
2.2 years ago by Jautis ▴ 510
0
votes
0
replies
6.8k
views
Answer: A: 012 genotype matrix using vcf tools
2.3 years ago by Jautis ▴ 510
7
votes
15
replies
5.9k
views
6 follow
Modifying fasta file based on vcf information
reference-genome vcf fasta
updated 12 weeks ago by 38k • written 7.8 years ago by ▴ 510
0
votes
0
replies
475
views
GO based on NCBI annotation
genome enrichment GSEA GO
2.6 years ago by Jautis ▴ 510
0
votes
0
replies
1.0k
views
Comment: C: Phasing non-human genomes with Beagle - do I need to divide subjects by populati
2.7 years ago by Jautis ▴ 510
0
votes
1
reply
11k
views
Comment: C: How to remove a list of reads from fastq file?
2.8 years ago by Jautis ▴ 510
145 results • Page 1 of 3
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