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Comment: Comment: Bad volcano plot
19 months ago by m.sadman.sakib ▴ 120
0
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0
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916
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Comment: Comment: What does that dip in the density plot mean from a single cell data analysis?
20 months ago by m.sadman.sakib ▴ 120
0
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0
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3.3k
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Comment: Comment: Which method is the best for using in "dba.count" in Diffbind R package
20 months ago by m.sadman.sakib ▴ 120
6
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6
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3.3k
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6 follow
Which method is the best for using in "dba.count" in Diffbind R package
ChIP-Seq diffbind
20 months ago by m.sadman.sakib ▴ 120
7
votes
3
replies
916
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What does that dip in the density plot mean from a single cell data analysis?
seurat scRNAseq
20 months ago by m.sadman.sakib ▴ 120
0
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0
replies
823
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Comment: Comment: Publishing RNA sequencing data analysis scripts on Github before or after Public
20 months ago by m.sadman.sakib ▴ 120
0
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0
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823
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Comment: Comment: Publishing RNA sequencing data analysis scripts on Github before or after Public
20 months ago by m.sadman.sakib ▴ 120
11
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5
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823
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Publishing RNA sequencing data analysis scripts on Github before or after Publication?
github
20 months ago by m.sadman.sakib ▴ 120
0
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0
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15k
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Comment: Comment: How to identify cell types using addModuleScore function?
20 months ago by m.sadman.sakib ▴ 120
0
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1
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15k
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Comment: Comment: How to identify cell types using addModuleScore function?
21 months ago by m.sadman.sakib ▴ 120
0
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1
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44k
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Comment: Comment: FindConservedMarkers vs FindMarkers vs FindAllMarkers Seurat
22 months ago by m.sadman.sakib ▴ 120
0
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0
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1.1k
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Suggestions for doing differential expression with 10x single cell data (two conditions, 4 replicates each, having 30K cells in each conditions))
edgeR rnaseq singlecellrnaseq deseq2 seurat
22 months ago by m.sadman.sakib ▴ 120
2
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4
replies
3.9k
views
Recommendation for packages for cell type deconvolution from bulk RNAseq data?
RNA-Seq cell type deconvolution
updated 2.6 years ago by • 0 • written 2.9 years ago by ▴ 120
1
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0
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1.3k
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Comment: C: Simple explanation and usage of WGCNA package?
2.8 years ago by m.sadman.sakib ▴ 120
0
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1
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1.3k
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Comment: C: Simple explanation and usage of WGCNA package?
2.8 years ago by m.sadman.sakib ▴ 120
0
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1
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1.3k
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Comment: C: Simple explanation and usage of WGCNA package?
2.8 years ago by m.sadman.sakib ▴ 120
1
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0
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1.3k
views
Comment: C: Simple explanation and usage of WGCNA package?
2.8 years ago by m.sadman.sakib ▴ 120
6
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7
replies
1.3k
views
Simple explanation and usage of WGCNA package?
wgcna RNA-Seq ChIP-Seq
2.8 years ago by m.sadman.sakib ▴ 120
0
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1
reply
2.1k
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Comment: C: Difference of DiffBind library size normalisation vs DESeq2 library size normali
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
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3.9k
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Comment: C: Recommendation for packages for cell type deconvolution from bulk RNAseq data?
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
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826
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Comment: C: Recommendation for using limma-voom workflow for ChIPseq analysis. Or other tool
2.9 years ago by m.sadman.sakib ▴ 120
1
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2
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826
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Recommendation for using limma-voom workflow for ChIPseq analysis. Or other tool for capturing global histone mark difference?
ChIP-Seq
2.9 years ago by m.sadman.sakib ▴ 120
19
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7
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1.6k
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How to avoid hardcoding in R? How to automatize R scripts?
R r programming RNA-Seq ChIP-Seq
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
replies
1.6k
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Comment: C: How to avoid hardcoding in R? How to automatize R scripts?
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
replies
1.6k
views
Comment: C: How to avoid hardcoding in R? How to automatize R scripts?
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
replies
2.1k
views
Comment: C: Difference of DiffBind library size normalisation vs DESeq2 library size normali
2.9 years ago by m.sadman.sakib ▴ 120
3
votes
11
replies
2.1k
views
Difference of DiffBind library size normalisation vs DESeq2 library size normalisation
DESeq2 Diffbind ChIP-Seq RNA-Seq normalisation
updated 2.9 years ago by ★ 1.7k • written 2.9 years ago by ▴ 120
0
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0
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2.1k
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Comment: C: Difference of DiffBind library size normalisation vs DESeq2 library size normali
2.9 years ago by m.sadman.sakib ▴ 120
0
votes
1
reply
2.1k
views
Comment: C: Difference of DiffBind library size normalisation vs DESeq2 library size normali
2.9 years ago by m.sadman.sakib ▴ 120
0
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1
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2.1k
views
Comment: C: Difference of DiffBind library size normalisation vs DESeq2 library size normali
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
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4.5k
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Comment: C: DESeq2 Appropriate Settings for Poorly Clustering Samples?
2.9 years ago by m.sadman.sakib ▴ 120
1
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1
reply
4.5k
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Comment: C: DESeq2 Appropriate Settings for Poorly Clustering Samples?
2.9 years ago by m.sadman.sakib ▴ 120
0
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1
reply
4.5k
views
Comment: C: DESeq2 Appropriate Settings for Poorly Clustering Samples?
2.9 years ago by m.sadman.sakib ▴ 120
0
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1
reply
4.5k
views
Comment: C: DESeq2 Appropriate Settings for Poorly Clustering Samples?
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
replies
773
views
What is Eigengene value? how they can be calculated for groups of genes in two conditions? How SVD is related to it?
RNA-Seq
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
replies
49k
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Comment: C: How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental
2.9 years ago by m.sadman.sakib ▴ 120
1
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0
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2.4k
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Answer: A: Error when using ChIPQC package
2.9 years ago by m.sadman.sakib ▴ 120
0
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0
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1.3k
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Comment: C: How can I find the promoter regions that have H3k27me3 in two different groups
3.5 years ago by m.sadman.sakib ▴ 120
0
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0
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6.1k
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Comment: C: How to calculate eigengenes on arbitrary expression data, not inside WGCNA
3.5 years ago by m.sadman.sakib ▴ 120
0
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0
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4.4k
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Comment: C: Annotate peaks based on Histone Mark
3.5 years ago by m.sadman.sakib ▴ 120
6
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5
replies
2.7k
views
Questions related to ChromHMM+using MACS2 peak calling output bed file as input for ChromHMM?
macs2 ChIP-Seq ChromHMM MACS2 CHROMHMM
updated 3.7 years ago by ★ 1.0k • written 3.8 years ago by ▴ 120
0
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0
replies
2.8k
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Comment: C: Correlating ChIP-Seq peaks with isoform level expression
3.8 years ago by m.sadman.sakib ▴ 120
0
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0
replies
2.7k
views
Comment: C: Questions related to ChromHMM+using MACS2 peak calling output bed file as input
3.8 years ago by m.sadman.sakib ▴ 120
0
votes
1
reply
699
views
Defining bivalent promoters with H3K4me3 and H3K27me3 ChIPseq data
ChIP-Seq
3.8 years ago by m.sadman.sakib ▴ 120
0
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1
reply
2.7k
views
Comment: C: Questions related to ChromHMM+using MACS2 peak calling output bed file as input
3.8 years ago by m.sadman.sakib ▴ 120
0
votes
0
replies
710
views
Accurately identifying long non coding RNA from stranded total RNAseq(rRNA depleted)
RNA-Seq alignment sequencing
3.9 years ago by m.sadman.sakib ▴ 120
2
votes
3
replies
4.1k
views
Problem with demultiplexing illumina dual indexed libraries
RNA-Seq next-gen sequencing illumina sequence
updated 4.0 years ago by ★ 2.9k • written 4.0 years ago by ▴ 120
0
votes
0
replies
2.3k
views
Comment: C: How to rescale aggregation plots of different ChIP-seq datasets using ngsplot?
4.2 years ago by m.sadman.sakib ▴ 120
0
votes
0
replies
3.5k
views
Comment: C: Normalizing ChIP-seq Data To Spike-In Control
4.2 years ago by m.sadman.sakib ▴ 120
0
votes
1
reply
5.3k
views
Comment: C: How to find out whether Chip-seq peaks falls within promoter or enhancer region
4.2 years ago by m.sadman.sakib ▴ 120
57 results • Page 1 of 2
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