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Comment: Comment: remove batch effect
6 months ago by e.r.zakiev ▴ 200
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1.3k
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Comment: Comment: Why is chromHMM's binarizeBed with the -peaks argument not recommended for broad
7 months ago by e.r.zakiev ▴ 200
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1.4k
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Comment: Comment: Extract RPKM values from Diffbind
8 months ago by e.r.zakiev ▴ 200
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1
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697
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Comment: Comment: barcodes not show up in overrepresented sequences in FASTQC
9 months ago by e.r.zakiev ▴ 200
0
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1
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697
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Comment: Comment: barcodes not show up in overrepresented sequences in FASTQC
9 months ago by e.r.zakiev ▴ 200
6
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5
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697
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barcodes not show up in overrepresented sequences in FASTQC
ribo-seq barcodes
updated 9 months ago by 141k • written 9 months ago by ▴ 200
0
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0
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626
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Answer: Answer: Where can I find a TF-target gene network for skin tissue
10 months ago by e.r.zakiev ▴ 200
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475
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Comment: Comment: Panther db Reference List
11 months ago by e.r.zakiev ▴ 200
3
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2
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475
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Panther db Reference List
pantherdb enrichment-tests
updated 11 months ago by 43k • written 11 months ago by ▴ 200
3
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631
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Answer: Answer: Sewage covid sequence analysis using C-Wap
11 months ago by e.r.zakiev ▴ 200
0
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0
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36k
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Comment: Comment: ATAC-seq peak calling with MACS
12 months ago by e.r.zakiev ▴ 200
3
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1
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469
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Why not use ONLY promoter-bound peaks when testing for enrichment in differentially-bound regions?
ChIP-seq ChIPseeker GO
updated 13 months ago by 43k • written 13 months ago by ▴ 200
2
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2.6k
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Answer: Answer: ClusterProfiler enrichKEGG – remove organism name in plots?
13 months ago by e.r.zakiev ▴ 200
0
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1
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2.6k
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Comment: Comment: ClusterProfiler enrichKEGG – remove organism name in plots?
13 months ago by e.r.zakiev ▴ 200
0
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1
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1.3k
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Comment: Comment: msigdbr returns the same genesets for mouse as in for human,
13 months ago by e.r.zakiev ▴ 200
1
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1.6k
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Comment: Comment: Sorting a STAR-output bam file with samtools leads to a significant reduction in
13 months ago by e.r.zakiev ▴ 200
0
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0
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1.6k
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Comment: Comment: Sorting a STAR-output bam file with samtools leads to a significant reduction in
13 months ago by e.r.zakiev ▴ 200
0
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0
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1.3k
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Comment: Comment: msigdbr returns the same genesets for mouse as in for human,
13 months ago by e.r.zakiev ▴ 200
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0
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5.8k
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Comment: Comment: Ensembl Hg38 dna, dna_rm, and dna_sm
13 months ago by e.r.zakiev ▴ 200
2
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5
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1.3k
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msigdbr returns the same genesets for mouse as in for human,
msigdbr
updated 13 months ago by 13k • written 13 months ago by ▴ 200
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20k
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Comment: Comment: Cell Type Marker Databases?
13 months ago by e.r.zakiev ▴ 200
12
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8
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1.6k
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Sorting a STAR-output bam file with samtools leads to a significant reduction in size of the sorted bam file
samtools STAR
13 months ago by e.r.zakiev ▴ 200
0
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0
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10k
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Comment: Comment: How to submit multithreaded jobs on SLURM and determine number of threads?
13 months ago by e.r.zakiev ▴ 200
0
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0
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419
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Double-pass with STAR for better detection of spliced variants in assessing quality of FFPE RNAseq data: should I go for it?
RNA-seq STAR
updated 13 months ago by 43k • written 13 months ago by ▴ 200
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1
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2.5k
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Comment: Comment: Splice aware vs splice unaware aligners?
13 months ago by e.r.zakiev ▴ 200
0
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0
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43k
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Comment: Comment: Snakemake vs. Nextflow: strengths and weaknesses
13 months ago by e.r.zakiev ▴ 200
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0
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36k
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Comment: Comment: Transcript to gene level count for DEseq(2) use- Salmon/Sailfish/Kallisto etc.
13 months ago by e.r.zakiev ▴ 200
0
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1
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4.7k
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Comment: Comment: What does the decimal ending of a transcript id mean?
13 months ago by e.r.zakiev ▴ 200
3
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1
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664
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Which reference transcriptome/genome to use for mus musculus if I know the particular strain involved in the experiment?
mice alignment genome transcriptome
updated 14 months ago by 43k • written 14 months ago by ▴ 200
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18k
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Comment: Comment: RNA-Seq analysis using STAR and Salmon
14 months ago by e.r.zakiev ▴ 200
0
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1
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1.5k
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Comment: Comment: Reference genome
14 months ago by e.r.zakiev ▴ 200
0
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1.4k
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Comment: Comment: blast engine error empty blast query vector
14 months ago by e.r.zakiev ▴ 200
4
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1
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563
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TruSeq Illumina adapters are BLASTed with a high confidence to some genes/terms
RNAseq adapters Truseq BLAST
updated 14 months ago by 82k • written 14 months ago by ▴ 200
0
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4.7k
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Comment: Comment: Methodological problems are extremely common for enrichment analysis - beware th
18 months ago by e.r.zakiev ▴ 200
0
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0
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4.7k
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Comment: Comment: Methodological problems are extremely common for enrichment analysis - beware th
18 months ago by e.r.zakiev ▴ 200
1
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0
replies
782
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Answer: Answer: Gene Rank for GSEA Preranked analysis?
18 months ago by e.r.zakiev ▴ 200
86 results • Page 2 of 2
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