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6
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How different is rlog transformation from vst transformation in DESeq2
DESeq2 count normalization
updated 8 months ago by 82k • written 5.6 years ago by ▴ 700
1
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0
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887
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Comment: Comment: How to find DEG within a cluster between two groups without any replication info
22 months ago by piyushjo ▴ 700
0
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1
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887
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Comment: Comment: How to find DEG within a cluster between two groups without any replication info
22 months ago by piyushjo ▴ 700
0
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0
replies
631
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MACS2: broad and broad no-model output peaks are exactly the same. Is something wrong?
ChIP-seq macs2 H3K27ac
22 months ago by piyushjo ▴ 700
0
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1
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4.8k
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Answer: A: How to retrieve sets of protein sequences?
updated 3.6 years ago by 43k • written 5.4 years ago by ▴ 700
1
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1
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1.2k
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Comment: C: Is Pseudotime analysis most applicable to time-series experiments?
3.9 years ago by piyushjo ▴ 700
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0
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1.1k
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Comment: C: Advice for a start in Bioinformatics
3.9 years ago by piyushjo ▴ 700
1
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1
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2.6k
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Answer: A: pre-mRNA GTF reference for 10x
3.9 years ago by piyushjo ▴ 700
1
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1
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2.1k
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Comment: C: principal component analysis (PCA) of single cell samples which come from differ
3.9 years ago by piyushjo ▴ 700
1
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0
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2.1k
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Answer: A: principal component analysis (PCA) of single cell samples which come from differ
3.9 years ago by piyushjo ▴ 700
1
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0
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2.4k
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Comment: C: Compare signatures between scRNA-seq clusters in R
3.9 years ago by piyushjo ▴ 700
0
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0
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674
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Comment: C: Tophat / output without XS
3.9 years ago by piyushjo ▴ 700
1
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0
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4.3k
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Comment: C: Recommendation for packages for cell type deconvolution from bulk RNAseq data?
3.9 years ago by piyushjo ▴ 700
1
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1
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2.0k
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Comment: C: PCA on FPKM data
3.9 years ago by piyushjo ▴ 700
0
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0
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2.2k
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Comment: C: WGCNA "trait" file format?
3.9 years ago by piyushjo ▴ 700
1
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1
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2.0k
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Answer: C: PCA on FPKM data
3.9 years ago by piyushjo ▴ 700
0
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2
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2.2k
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Comment: C: WGCNA "trait" file format?
3.9 years ago by piyushjo ▴ 700
0
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1
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2.2k
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Comment: C: WGCNA "trait" file format?
3.9 years ago by piyushjo ▴ 700
0
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0
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723
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Comment: C: Classification of long non-coding RNAs
3.9 years ago by piyushjo ▴ 700
2
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0
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13k
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Comment: C: Rename Idents in Seurat Object
3.9 years ago by piyushjo ▴ 700
2
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0
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896
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Comment: C: Raw Data Requirement for RNA-Seq paper submission
4.0 years ago by piyushjo ▴ 700
1
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0
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3.4k
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Comment: C: Batch correction in scRNA-seq data via fastMNN | pro/contra
4.0 years ago by piyushjo ▴ 700
1
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0
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2.9k
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Comment: C: Have we failed as bioinformatician in this time of COVID-19
4.0 years ago by piyushjo ▴ 700
0
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0
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19k
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Comment: C: ggplot2 labeling and coloring specific Data points in Scatter Plot
4.0 years ago by piyushjo ▴ 700
0
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1
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2.5k
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Comment: C: Optimal K-means cluster # for large data (R)
4.0 years ago by piyushjo ▴ 700
0
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0
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2.1k
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Comment: C: Deseq2 design matrix for multiple factors
4.0 years ago by piyushjo ▴ 700
0
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1
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2.5k
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Answer: C: Optimal K-means cluster # for large data (R)
4.0 years ago by piyushjo ▴ 700
1
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0
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931
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Comment: C: Seurat code availability for published papers
4.0 years ago by piyushjo ▴ 700
0
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0
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923
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Comment: C: DESeq analysis with different replication
4.0 years ago by piyushjo ▴ 700
0
votes
0
replies
942
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Comment: C: Marker genes of a scRNA-Seq experiment not found in the processed data set gene
4.0 years ago by piyushjo ▴ 700
0
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1
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942
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Comment: C: Marker genes of a scRNA-Seq experiment not found in the processed data set gene
4.0 years ago by piyushjo ▴ 700
0
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1
reply
1.3k
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Comment: C: How to best summarize read counts overlapping promoters when read counts are def
4.0 years ago by piyushjo ▴ 700
0
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0
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1.0k
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Comment: C: How to distinguish malignant vs non-malignant cells based on gene expression dat
4.0 years ago by piyushjo ▴ 700
0
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1
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1.0k
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Comment: C: How to distinguish malignant vs non-malignant cells based on gene expression dat
4.0 years ago by piyushjo ▴ 700
0
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0
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1.2k
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Answer: A: How to map find specific genes in RNA Seq dataset ?
4.0 years ago by piyushjo ▴ 700
1
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1
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1.2k
views
Comment: C: How to map find specific genes in RNA Seq dataset ?
4.0 years ago by piyushjo ▴ 700
1
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1
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1.2k
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Comment: C: How to map find specific genes in RNA Seq dataset ?
4.0 years ago by piyushjo ▴ 700
1
vote
1
reply
1.2k
views
Comment: C: How to map find specific genes in RNA Seq dataset ?
4.0 years ago by piyushjo ▴ 700
8
votes
3
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3.9k
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How to make an intronic GTF for alignment
RNA-Seq intronic-gtf
updated 10 months ago by 43k • written 4.0 years ago by ▴ 700
0
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0
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3.9k
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Comment: C: How to make an intronic GTF for alignment
4.0 years ago by piyushjo ▴ 700
1
vote
0
replies
615
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Comment: C: Cannot find a gene in the counts table
4.0 years ago by piyushjo ▴ 700
2
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0
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21k
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Comment: C: Subsetting - Raw Counts from Seurat Object
4.0 years ago by piyushjo ▴ 700
0
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1
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21k
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Comment: C: Subsetting - Raw Counts from Seurat Object
4.0 years ago by piyushjo ▴ 700
1
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0
replies
2.3k
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Comment: C: STAR genome index Error
4.1 years ago by piyushjo ▴ 700
0
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1
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2.3k
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Comment: C: STAR genome index Error
4.1 years ago by piyushjo ▴ 700
0
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1
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2.3k
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Comment: C: STAR genome index Error
4.1 years ago by piyushjo ▴ 700
0
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0
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7.3k
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Comment: C: Only doing log2 transformation for RNAseq read count data without normalizing by
4.1 years ago by piyushjo ▴ 700
1
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0
replies
7.3k
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Comment: C: Only doing log2 transformation for RNAseq read count data without normalizing by
4.1 years ago by piyushjo ▴ 700
0
votes
1
reply
7.3k
views
Comment: C: Only doing log2 transformation for RNAseq read count data without normalizing by
4.1 years ago by piyushjo ▴ 700
2
votes
0
replies
1.3k
views
Comment: C: Consensus WGCNA: soft-threshold power selection
4.1 years ago by piyushjo ▴ 700
147 results • Page 1 of 3
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