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391
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Comment: Comment: Demultiplexing samples when barcodes repeat: Any advice?
8 weeks ago by Pratik ★ 1.1k
1
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0
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898
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Answer: Answer: adding gene and CDS feature types in ensemble gtf annotation with transcript and
14 months ago by Pratik ★ 1.1k
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0
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1.3k
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Answer: Answer: How to do DE between cells expressing specific gene in scanpy?
14 months ago by Pratik ★ 1.1k
1
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1
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941
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Answer: Answer: Get the gene functions specific for clusters (RNA seq)
16 months ago by Pratik ★ 1.1k
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0
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976
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Comment: Comment: Should centering and scaling be done on methylation beta values for principal co
16 months ago by Pratik ★ 1.1k
1
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2
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976
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Should centering and scaling be done on methylation beta values for principal component analysis (PCA)?
PCA PCAtools
16 months ago by Pratik ★ 1.1k
0
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0
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898
views
Comment: Comment: Is it possible to bulk-download gene expression + methylation data for a specifi
17 months ago by Pratik ★ 1.1k
4
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3
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898
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Is it possible to bulk-download gene expression + methylation data for a specific copy number loss on TCGA?
tcga
updated 16 months ago by ★ 1.3k • written 17 months ago by ★ 1.1k
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0
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9.5k
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Comment: Comment: How to find CpG island shore?
2.6 years ago by Pratik ★ 1.1k
0
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1
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9.5k
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Answer: Answer: How to find CpG island shore?
2.6 years ago by Pratik ★ 1.1k
4
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1
reply
1000
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When running salmon or star_salmon , are samples “independent” from one another during quantification (ie. to remove low quality samples after a mult…
salmon pre-processing star_salmon rna-seq
updated 2.7 years ago by 88k • written 2.7 years ago by ★ 1.1k
0
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0
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745
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Job: Research Technician – Computational Biology Core - (UConn CBC) - Connecticut
connecticut technician
updated 2.5 years ago by 45k • written 2.7 years ago by ★ 1.1k
12
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3
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1.4k
views
Conceptual questions regarding computational genome/annotation versions and their impact on the actual truth of sequencing?
wes sequencing wgs rna-seq
updated 2.7 years ago by 4.1k • written 2.7 years ago by ★ 1.1k
0
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0
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1.2k
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Comment: Comment: Pros and Cons of DNA Mass Spectrometry versus WES/WGS?
2.8 years ago by Pratik ★ 1.1k
3
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2
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1.2k
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Pros and Cons of DNA Mass Spectrometry versus WES/WGS?
spec mass wes dna wgs
2.8 years ago by Pratik ★ 1.1k
0
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1
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7.6k
views
Comment: Comment: What is a count matrix for input into Seurat supposed to look like?
3.1 years ago by Pratik ★ 1.1k
0
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0
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42k
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Comment: Comment: How to embed known cell information into Seurat object? AddMetaData?
3.2 years ago by Pratik ★ 1.1k
0
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0
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2.1k
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Comment: Comment: Seurat subset cluster cell annotation
3.4 years ago by Pratik ★ 1.1k
3
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0
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2.1k
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Answer: Answer: scSeq millions of cells
3.4 years ago by Pratik ★ 1.1k
1
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1
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2.0k
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Comment: Comment: Forcing Seurat to include certain genes during integration
3.4 years ago by Pratik ★ 1.1k
0
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1
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2.7k
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Answer: Answer: scRNA seq differential gene expression analyses
3.5 years ago by Pratik ★ 1.1k
13
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4
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19k
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How to use FindSubCluster in Seurat?
seurat R single cell RNA-seq
updated 3.5 years ago by • 0 • written 4.3 years ago by ★ 1.1k
0
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0
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7.6k
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Comment: Comment: What is a count matrix for input into Seurat supposed to look like?
3.5 years ago by Pratik ★ 1.1k
6
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10
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7.6k
views
What is a count matrix for input into Seurat supposed to look like?
R RNA-Seq Monocle3 Seurat
updated 3.1 years ago by 45k • written 4.8 years ago by ★ 1.1k
4
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1
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3.1k
views
Answer: Answer: how to find each cluster in single-cell represent which cell type?
3.6 years ago by Pratik ★ 1.1k
3
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1
reply
1.9k
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Answer: Answer: How do I download a list of genes involved in cellular metabolism (in humans) ba
3.6 years ago by Pratik ★ 1.1k
0
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1
reply
3.4k
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Comment: Comment: How to quickly find and filter coexpressed markers with one specific gene of int
3.6 years ago by Pratik ★ 1.1k
1
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3
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3.4k
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How to quickly find and filter coexpressed markers with one specific gene of interest in individual cells using scRNA-seq data?
scRNA-seq Seurat coexpression
updated 3.6 years ago by ▴ 270 • written 3.6 years ago by ★ 1.1k
1
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0
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1.1k
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Comment: Comment: PathFindR: Running Reactome for Mouse
3.6 years ago by Pratik ★ 1.1k
0
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0
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920
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Comment: Comment: Finding players and targets of expression-regulating pathways
3.5 years ago by Pratik ★ 1.1k
0
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0
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3.3k
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Comment: Comment: How to compare expression levels of specific genes between sample groups after g
3.6 years ago by Pratik ★ 1.1k
0
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2
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3.3k
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Comment: Comment: How to compare expression levels of specific genes between sample groups after g
3.6 years ago by Pratik ★ 1.1k
6
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6
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3.3k
views
How to compare expression levels of specific genes between sample groups after generating DEG list?
RNA-seq TMM edgeR
3.6 years ago by Pratik ★ 1.1k
0
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1
reply
1.4k
views
Comment: Comment: How to create shiny app for deseq2 object creation
3.6 years ago by Pratik ★ 1.1k
0
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0
replies
1.3k
views
Answer: Answer: Entry level jobs
3.6 years ago by Pratik ★ 1.1k
8
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0
replies
1.9k
views
Answer: Answer: General question about clustering in scRNAseq
3.6 years ago by Pratik ★ 1.1k
2
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1
reply
954
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Is a single dot on a UMAP or t-SNE for scRNA-seq - a single cell?
scRNA-seq
updated 3.7 years ago by ★ 19k • written 3.7 years ago by ★ 1.1k
0
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0
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2.5k
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Answer: Answer: How to show relabel sub cluster on the original cluster in Seurat
3.7 years ago by Pratik ★ 1.1k
1
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0
replies
2.4k
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Answer: Answer: Database for Enhancers with Coordinates
3.7 years ago by Pratik ★ 1.1k
1
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1
reply
1.2k
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Answer: Answer: Pathogen-drug network
3.7 years ago by Pratik ★ 1.1k
0
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0
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1.5k
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Comment: Comment: Chromosome sizes downloading (in bp).
3.7 years ago by Pratik ★ 1.1k
0
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0
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2.4k
views
Comment: Comment: How to rename the elements in columns(txdb)?
3.8 years ago by Pratik ★ 1.1k
4
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3
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2.4k
views
How to rename the elements in columns(txdb)?
GenomicFeatures GenomicRanges GenomeInfoDb
3.8 years ago by Pratik ★ 1.1k
0
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0
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2.4k
views
Comment: Comment: How to rename the elements from columns(txdb)?
3.8 years ago by Pratik ★ 1.1k
0
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0
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7.6k
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Answer: Answer: Extracting exons and transcripts from gff3/gtf
3.8 years ago by Pratik ★ 1.1k
0
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0
replies
2.7k
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Comment: Comment: Good or bad idea to annotate with newer genome build?
3.8 years ago by Pratik ★ 1.1k
1
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0
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2.7k
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Comment: Comment: Good or bad idea to annotate with newer genome build?
3.8 years ago by Pratik ★ 1.1k
4
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4
replies
2.7k
views
Good or bad idea to annotate with newer genome build?
array methylation beadchip build annotation
3.8 years ago by Pratik ★ 1.1k
0
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0
replies
1.0k
views
Why is there not a intronsBy() function in GenomicFeatures? only intronsByTranscript()?
GenomicRanges GenomicFeatures genic introns intronsbytranscript
3.8 years ago by Pratik ★ 1.1k
1
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1
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1.8k
views
Comment: Comment: Is removing strand information when obtaining intergenic regions from GRanges ne
3.8 years ago by Pratik ★ 1.1k
172 results • Page 1 of 4
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