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Comment: Comment: Can transcripts per million be fed into edgeR and voom?
1 day ago by dare_devil ★ 1.7k
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0
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4.1k
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Comment: Comment: CPM or TPM in GSEA analysis
5 days ago by dare_devil ★ 1.7k
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0
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4.1k
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Comment: Comment: CPM or TPM in GSEA analysis
5 days ago by dare_devil ★ 1.7k
0
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1
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4.1k
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Comment: Comment: CPM or TPM in GSEA analysis
6 days ago by dare_devil ★ 1.7k
7
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1
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4.1k
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Answer: Answer: CPM or TPM in GSEA analysis
8 days ago by dare_devil ★ 1.7k
0
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0
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201
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Comment: Comment: Questions about supplementary file contents of a GEO dataset
8 days ago by dare_devil ★ 1.7k
0
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0
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2.3k
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Answer: Answer: strandness of paired-end data
19 days ago by dare_devil ★ 1.7k
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0
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938
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Comment: Comment: RSeQC confusing output - Half fails to determine, half is reverse strand
19 days ago by dare_devil ★ 1.7k
0
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0
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1.4k
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Comment: Comment: CIBERSORT input file for RNA-Seq data
23 days ago by dare_devil ★ 1.7k
0
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0
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426
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Comment: Comment: How to get per sample read depth from VCF with no DP field
5 weeks ago by dare_devil ★ 1.7k
0
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0
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9.0k
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Answer: Answer: combining quantification (featureCounts) result files into a single dataset
8 weeks ago by dare_devil ★ 1.7k
0
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0
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5.7k
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Answer: Answer: Featurecounts to DESEq2 - How to merge biological replicates?
8 weeks ago by dare_devil ★ 1.7k
0
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0
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1.1k
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Answer: Answer: STAR alignment in a full directory
8 weeks ago by dare_devil ★ 1.7k
0
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0
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2.2k
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Answer: Answer: How to run STAR with multiple files
8 weeks ago by dare_devil ★ 1.7k
0
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0
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14k
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Answer: Answer: TrimGalore! on multiple paired fastq files
8 weeks ago by dare_devil ★ 1.7k
0
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0
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151
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What is the normalization status of metabric data?
metabric normalization microarray cbioportal
11 weeks ago by dare_devil ★ 1.7k
0
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1
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343
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Comment: Comment: Problem creating new conda environment
12 weeks ago by dare_devil ★ 1.7k
0
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1
reply
10k
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Comment: Comment: How to do FPKM differential analysis?
3 months ago by dare_devil ★ 1.7k
0
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0
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5.4k
views
Comment: Comment: How to change color of rownames display in pheatmap
3 months ago by dare_devil ★ 1.7k
0
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2
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725
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A USER ERROR has occurred: Positive training model failed to converge.
gatk vcf max-gaussians
updated 3 months ago by • 0 • written 22 months ago by ★ 1.7k
0
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0
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367
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Comment: Comment: The difference of RNA-seq data between TCGA and ENCODE
4 months ago by dare_devil ★ 1.7k
0
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1
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367
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Comment: Comment: The difference of RNA-seq data between TCGA and ENCODE
5 months ago by dare_devil ★ 1.7k
1
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1
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3.1k
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Comment: Comment: TCGA transcriptome data to R (DESeq2)
6 months ago by dare_devil ★ 1.7k
0
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0
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3.1k
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Comment: Comment: How to extract count matrix from TCGAbiolinks using STAR-Counts
7 months ago by dare_devil ★ 1.7k
3
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1
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636
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Answer: Answer: RNA Seq HTSeq download GDC portal
8 months ago by dare_devil ★ 1.7k
1
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0
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943
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Tutorial: Generating count matrix for STAR counts in GDC v32.0 for RNA-Seq
TCGA Counts v32.0 Biolinks GDC STAR
8 months ago by dare_devil ★ 1.7k
0
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1
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3.1k
views
Comment: Comment: TCGA transcriptome data to R (DESeq2)
8 months ago by dare_devil ★ 1.7k
0
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0
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22k
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Answer: Answer: Mapping Mouse gene names to Human gene names
8 months ago by dare_devil ★ 1.7k
17
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2
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958
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How do we deal with `MIXED` type variants in VQSR mode of Variant filtering ?
VQSR GATK VariantRecalibrator
9 months ago by dare_devil ★ 1.7k
4
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0
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958
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Answer: Answer: How do we deal with `MIXED` type variants in VQSR mode of Variant filtering ?
9 months ago by dare_devil ★ 1.7k
0
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0
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3.5k
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Answer: Answer: Running featureCounts separately for each sample and merging results
10 months ago by dare_devil ★ 1.7k
3
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0
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2.8k
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Answer: Answer: Split multiallelic SNPs to biallelic from vcf
10 months ago by dare_devil ★ 1.7k
0
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0
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1.9k
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Comment: Comment: bcftools multiallelic split not working
10 months ago by dare_devil ★ 1.7k
0
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0
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223
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How is the pvalue in cibersort calculated?
pvalue cibersort
11 months ago by dare_devil ★ 1.7k
0
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0
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15k
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Comment: Comment: STAR align multiple files
15 months ago by dare_devil ★ 1.7k
0
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0
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3.3k
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Comment: Comment: Aligning Multiple paired end files together
15 months ago by dare_devil ★ 1.7k
0
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0
replies
536
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Comment: Comment: METABRIC sample IDs
16 months ago by dare_devil ★ 1.7k
1
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1
reply
513
views
How to perform differential expression analysis of metabric data obtained from METABRIC?
DEseq2 cbioportal EdgeR limma
updated 17 months ago by ★ 1.3k • written 17 months ago by ★ 1.7k
0
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0
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442
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Comment: Comment: How do I call compound hetrozygosity from multiple trios cohort?
17 months ago by dare_devil ★ 1.7k
0
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2
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442
views
How do I call compound hetrozygosity from multiple trios cohort?
ped gatk trio heterozygosity compound vcf
17 months ago by dare_devil ★ 1.7k
0
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0
replies
397
views
How to filter the germline INDELS?
INDELS GATK VCF
18 months ago by dare_devil ★ 1.7k
10
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4
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2.3k
views
How to extract all columns of CSQ using split-vep plugin of bcftools?
plugin samtools bcftools vcf split-vep
updated 12 weeks ago by ▴ 50 • written 20 months ago by ★ 1.7k
1
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2
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643
views
How can I revert back the Ensembl vep annotated positions to vcf positions?
ensembl VEP VCF
updated 20 months ago by 66k • written 20 months ago by ★ 1.7k
0
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0
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2.3k
views
Comment: Comment: How to extract all columns of CSQ using split-vep plugin of bcftools?
20 months ago by dare_devil ★ 1.7k
0
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0
replies
1.8k
views
Comment: Comment: Keep values from VCF file into Ensembl VEP annotation
20 months ago by dare_devil ★ 1.7k
1
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2
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1.8k
views
Answer: Answer: Keep values from VCF file into Ensembl VEP annotation
20 months ago by dare_devil ★ 1.7k
0
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0
replies
472
views
what are the parameters we should change when we run VariantsToTable of GATK in splitting multi allelic mode?
variantstotable gatk vcf picard
20 months ago by dare_devil ★ 1.7k
0
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1
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1.5k
views
Answer: Answer: Another infer_experiment.py interpretation question
5 weeks ago by dare_devil ★ 1.7k
2
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2
replies
1.1k
views
Infering strand specificity of bam files using rseqc?
RSeQC bam featureCounts
updated 20 months ago by 96k • written 20 months ago by ★ 1.7k
0
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0
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4.1k
views
Comment: Comment: RSeQC infer_experiment.py results interpretation for cuffdiff and featureCounts
20 months ago by dare_devil ★ 1.7k
164 results • Page 1 of 4
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