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170
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Comment: Comment: Detect changes in cell viability with bulk RNA-seq?
1 day ago by txema.heredia ▴ 200
0
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2
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170
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Detect changes in cell viability with bulk RNA-seq?
DEG viability RNA
1 day ago by txema.heredia ▴ 200
0
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0
replies
214
views
Minimum number of replicates when doing scRNA-seq using cell-lines?
design 10x single-cell
10 weeks ago by txema.heredia ▴ 200
1
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1
reply
596
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Answer: Answer: DESeq2: adjusted p-values become NA when sub-setting samples
10 weeks ago by txema.heredia ▴ 200
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0
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4.0k
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Comment: Comment: collapsePathways function throwing error
3 months ago by txema.heredia ▴ 200
3
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4
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596
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DESeq2: adjusted p-values become NA when sub-setting samples
R DEG RNA-seq DESeq2
updated 10 weeks ago by 149k • written 3 months ago by ▴ 200
6
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3
replies
608
views
Does single-end short-read sequencing affect the mapping of mitochondrial and ribosomal RNA?
pair-end single-end RNA-seq
updated 6 months ago by ▴ 280 • written 6 months ago by ▴ 200
2
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0
replies
608
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Comment: Comment: Does single-end short-read sequencing affect the mapping of mitochondrial and ri
6 months ago by txema.heredia ▴ 200
0
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0
replies
418
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Comment: Comment: Single cell - integration after demultiplexing samples?
7 months ago by txema.heredia ▴ 200
0
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2
replies
418
views
Single cell - integration after demultiplexing samples?
integration demultiplexing single-cell
7 months ago by txema.heredia ▴ 200
3
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4
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2.4k
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell ambient-RNA
updated 8 months ago by ★ 1.7k • written 8 months ago by ▴ 200
0
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1
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2.4k
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Answer: Answer: Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
8 months ago by txema.heredia ▴ 200
0
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0
replies
966
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Comment: Comment: How to handle duplicated genes in TCGA data?
8 months ago by txema.heredia ▴ 200
0
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2
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966
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Answer: Answer: How to handle duplicated genes in TCGA data?
8 months ago by txema.heredia ▴ 200
0
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0
replies
2.4k
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Comment: Comment: Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
8 months ago by txema.heredia ▴ 200
0
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1
reply
12k
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Comment: Comment: biomaRt: Timeout on getBM().
9 months ago by txema.heredia ▴ 200
1
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0
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1.7k
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Answer: Answer: KEGG analysis in R
9 months ago by txema.heredia ▴ 200
0
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0
replies
292
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Inferring cell identity/genotype in single cells with missing information
cell seurat single score
9 months ago by txema.heredia ▴ 200
0
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0
replies
1.3k
views
Comment: Comment: Single cell demultiplexing using 10x and TotalSeq-B
10 months ago by txema.heredia ▴ 200
0
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3
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1.3k
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Single cell demultiplexing using 10x and TotalSeq-B
demultiplexing cellranger antibodies single-cell
10 months ago by txema.heredia ▴ 200
0
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0
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986
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Comment: Comment: Can I infer the fraction of replicating cells from bulk RNA-seq data?
updated 16 months ago by 44k • written 16 months ago by ▴ 200
2
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3
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986
views
Can I infer the fraction of replicating cells from bulk RNA-seq data?
replication apoptosis
updated 16 months ago by 44k • written 16 months ago by ▴ 200
2
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1
reply
760
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DESeq2 design comparing changes through 2 timepoints of 2 different treatments.
RNA-seq deseq2
updated 16 months ago by 14k • written 16 months ago by ▴ 200
2
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7
replies
1.8k
views
Tool to search for missing genes among genome annotation versions?
annotation
updated 17 months ago by 4.5k • written 17 months ago by ▴ 200
0
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1
reply
1.8k
views
Comment: Comment: Tool to search for missing genes among genome annotation versions?
17 months ago by txema.heredia ▴ 200
0
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1
reply
886
views
Help manually processing strand in paired-end reads when fishing for lariats in bulk RNA-seq
lariat splicing rna-seq
19 months ago by txema.heredia ▴ 200
0
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0
replies
886
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Answer: Answer: Help manually processing strand in paired-end reads when fishing for lariats in
19 months ago by txema.heredia ▴ 200
0
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0
replies
474
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Differential Gene Expression analysis in heterogeneous tissues
RNA-seq deseq2
updated 20 months ago by 44k • written 20 months ago by ▴ 200
0
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0
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4.0k
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Comment: Comment: Aberrant splicing in bulk RNAseq
20 months ago by txema.heredia ▴ 200
0
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1
reply
4.0k
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Comment: Comment: Aberrant splicing in bulk RNAseq
20 months ago by txema.heredia ▴ 200
0
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1
reply
4.0k
views
Comment: Comment: Aberrant splicing in bulk RNAseq
21 months ago by txema.heredia ▴ 200
0
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0
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4.0k
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Comment: Comment: Aberrant splicing in bulk RNAseq
21 months ago by txema.heredia ▴ 200
0
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2
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4.0k
views
Comment: Comment: Aberrant splicing in bulk RNAseq
21 months ago by txema.heredia ▴ 200
0
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1
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4.0k
views
Comment: Comment: Aberrant splicing in bulk RNAseq
21 months ago by txema.heredia ▴ 200
0
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1
reply
4.0k
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Comment: Comment: Aberrant splicing in bulk RNAseq
22 months ago by txema.heredia ▴ 200
0
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0
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563
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BULK mRNA-seq with UMIs. Does it make sense to run bedtools genomecov?
RNAseq gene-length normalization
22 months ago by txema.heredia ▴ 200
15
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21
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4.0k
views
6 follow
Aberrant splicing in bulk RNAseq
aberrant-splicing transcript isoform exon
updated 20 months ago by • 0 • written 23 months ago by ▴ 200
0
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0
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4.0k
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Comment: Comment: Aberrant splicing in bulk RNAseq
23 months ago by txema.heredia ▴ 200
0
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1
reply
4.0k
views
Comment: Comment: Aberrant splicing in bulk RNAseq
23 months ago by txema.heredia ▴ 200
0
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0
replies
2.3k
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Comment: Comment: Mapped reads not mapping to a real sequence?
23 months ago by txema.heredia ▴ 200
0
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3
replies
2.3k
views
Comment: Comment: Mapped reads not mapping to a real sequence?
23 months ago by txema.heredia ▴ 200
0
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1
reply
2.3k
views
Comment: Comment: Mapped reads not mapping to a real sequence?
23 months ago by txema.heredia ▴ 200
0
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0
replies
2.3k
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Comment: Comment: Mapped reads not mapping to a real sequence?
23 months ago by txema.heredia ▴ 200
0
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1
reply
2.3k
views
Comment: Comment: Mapped reads not mapping to a real sequence?
23 months ago by txema.heredia ▴ 200
8
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13
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2.3k
views
Mapped reads not mapping to a real sequence?
bam sam samtools kallisto
23 months ago by txema.heredia ▴ 200
1
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1
reply
2.8k
views
Comment: Comment: BULK mRNA-seq with UMIs. Do I need to normalize by gene length?
2.0 years ago by txema.heredia ▴ 200
17
votes
7
replies
2.8k
views
BULK mRNA-seq with UMIs. Do I need to normalize by gene length?
mRNA UMI normalization illumina DESeq2
updated 2.0 years ago by 5.0k • written 2.0 years ago by ▴ 200
0
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0
replies
2.8k
views
Comment: Comment: BULK mRNA-seq with UMIs. Do I need to normalize by gene length?
2.0 years ago by txema.heredia ▴ 200
0
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1
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1.8k
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Comment: C: Retrieving individual cells from scRNA-seq bigWig files?
4.8 years ago by txema.heredia ▴ 200
2
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4
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1.8k
views
Retrieving individual cells from scRNA-seq bigWig files?
single cell RNA-Seq scRNA-seq bigwig
updated 4.8 years ago by 12k • written 4.8 years ago by ▴ 200
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