gc5
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2 answers
13 votes
2k views
1 bookmarks
How to decide number of neighbors and resolution for Louvain clustering
2 answers
8 votes
7k views
3 bookmarks
Are mitochondrial genes to exclude in scRNA-seq such as ribosomal genes?
2 answers
8 votes
5k views
5 bookmarks
How do PCR duplicates arise and why is it important to remove them for NGS analysis?
2 answers
6 votes
4k views
What are doublets in single cell RNA-seq data?
3 answers
6 votes
329 views
Fast filtering of intervals not falling within a certain distance from known genes
1 answers
6 votes
1k views
3 bookmarks
Order of batch effects removal, data imputation and library size normalization in scRNA-seq data
1 answers
6 votes
214 views
Scaling by linear regression against the number of reads
1 answers
6 votes
650 views
1 bookmarks
Drawbacks of upper quartile normalization for scRNA-seq data
1 answers
6 votes
2k views
What's a template switching site?
3 answers
5 votes
3k views
1 bookmarks
Is it possible to merge scRNAseq data from experiments with different design?
1 answers
5 votes
762 views
1 bookmarks
No counts for added gene in cellranger (scRNA-seq)
1 answers
5 votes
79 views
What is and how to detect a dephased read
2 answers
5 votes
308 views
1 bookmarks
Smallest group size for differential expression in limma (bulk RNA-Seq)
1 answers
5 votes
393 views
2 bookmarks
Which tools for differential expression analysis in scRNA-Seq?
1 answers
5 votes
577 views
How to get results from Homo.sapiens package in bioconductor for a specific reference
1 answers
5 votes
506 views
1 bookmarks
Single-cell RNA sequencing (scRNA-seq): filtering cells by transcript counts, how to choose cutoffs?
1 answers
5 votes
81 views
How to compute the chance of failing to detect a gene given the detection limit of a protocol
1 answers
5 votes
1k views
What is local realignment and what is the problem it solves?
1 answers
4 votes
219 views
Where can I get the population allele frequency vcf file?
2 answers
4 votes
568 views
Collapse cell barcodes distribution within 1 Hamming distance
1 answers
4 votes
92 views
Compute copy number from cases and controls
1 answers
4 votes
137 views
Why is ribosomal RNA difficult to remove even with Poly(A) selection?
1 answers
4 votes
927 views
Inspection of gene expression in scRNA-seq data
1 answers
4 votes
2k views
Estimating BAM file from compressed fastq file size
1 answers
3 votes
44 views
Defining a bedfile for chromosome X without pseudo-autosomal regions
0 answers
3 votes
485 views
Fastest way to demultiplex bam file based on field
2 answers
3 votes
171 views
1 bookmarks
Hemoglobin subunits genes in scRNA-seq
3 answers
3 votes
306 views
Normalization for two bulk RNA-Seq samples to enable reliable fold-change estimation between genes
2 answers
3 votes
3k views
1 bookmarks
What are RIKEN genes?
1 answers
3 votes
53 views
How to apply function on bedfile based on a reference bedfile