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5
votes
1
reply
5.0k
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Answer:
A: rowVars function, used in ballgown analysis not available for R 3.5.2, alternati
5.1 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
3
votes
1
reply
1.4k
views
Answer:
A: When exactly is a gene "expressed"?
5.1 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
1.5k
views
Answer:
A: How to extract normalized matrix after using calcNormFact function (with TMM met
5.1 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
1
reply
1.1k
views
Answer:
A: Filtering values for two group separately
5.1 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
3
votes
0
replies
3.1k
views
Answer:
A: download CNV file for breast cancer BRCA from TCGA website
5.1 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
1
reply
3.8k
views
Answer:
A: transcripts assemble by StringTie
5.1 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
1
reply
1.4k
views
Answer:
A: TPM normalization of transcript
5.1 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
0
replies
2.7k
views
Answer:
A: Get 3'UTR sequence using RNAseq read coverage
5.2 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
1
reply
2.7k
views
Answer:
A: Fastest (non-pseudo) aligner for RNA-seq illumina seq data (year 2019)
5.2 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
1
reply
1.5k
views
Answer:
A: Understanding FANTOM5 CAGE fields
5.2 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
3
votes
1
reply
1.2k
views
Answer:
A: Splice site usage from RNA-seq data
5.2 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
1.7k
views
Answer:
A: How to quantify mRNA transcripts from RNA-Seq data?
5.2 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
23
votes
3
replies
15k
views
Answer:
A: Tools To Do the Alternative Splicing Analysis
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
3
votes
0
replies
1.4k
views
Answer:
A: Given a list of cell surface genes, is there a computational possibility to pred
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
1
reply
2.4k
views
Answer:
A: Analyzing 3' RNA seq library with DEseq2
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
816
views
Answer:
A: Percent abundance of two separate species in transcriptome data
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
0
replies
1.1k
views
Answer:
A: Can I perform de novo analysis on RNA seq file of Mus musculus?
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
4
votes
1
reply
4.4k
views
Answer:
A: How does monocle identify the begging of pseudotime?
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
2.0k
views
Answer:
A: Is it appropriate to apply RUVseq on output from kallisto?
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
0
replies
1.3k
views
Answer:
A: GETx patient RNA_Seq read count download
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
2.5k
views
Answer:
A: StringTie - Multimapped reads
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
0
replies
5.9k
views
Answer:
A: Differential expression: replicates in one condition, no replicates in the other
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
3
votes
0
replies
12k
views
Answer:
A: Stringtie to DESeq2
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
0
replies
2.1k
views
Answer:
A: batch effect in RNAseq analysis using tophat cufflinks pipeline
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
1.2k
views
Answer:
A: Novel protein isoform - how to investigate tissue and tissue expression using da
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
0
replies
6.7k
views
Answer:
A: How to change cellranger multimapping algorithm
5.3 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
0
replies
3.3k
views
Answer:
A: Suggested pipelines for finding somatic mutations using RNAseq in normal and tum
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
1.4k
views
Answer:
A: Identifiyng mutual trends between treatments
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
4
votes
1
reply
2.5k
views
Answer:
A: How to perfectly use transcript merge method of various software like stringtie?
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
3
votes
0
replies
4.4k
views
Answer:
A: Interpretation of TCGA clinical data
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
1
reply
3.2k
views
Answer:
A: STAR Splice Junctions normalization
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
0
replies
2.3k
views
Answer:
A: gffread executable file
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
1
reply
2.4k
views
Answer:
A: Could you please tell me how should I analyze the difference between KO and WT m
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
3.1k
views
Answer:
A: Is Kallisto good for identifying non-coding RNA in a RNAseq data?
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
1
reply
2.8k
views
Answer:
A: RNA-Seq time-series analysis among disease samples - analysis strategy advice
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
1
reply
1.9k
views
Answer:
A: How to identify RNA-seq mapped reads to reference genome but not identified by f
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
8
votes
1
reply
8.0k
views
Answer:
A: How to deal with the case that one gene symbol matches multiple ensembl ids?
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
1
reply
7.1k
views
Answer:
A: Time-series Differential Expression Analysis
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
1
reply
2.0k
views
Answer:
A: Question regarding Batch removal in single cell RNA seq data
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
1.5k
views
Answer:
A: Cluster samples based on expression of a subset of genes
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
2.4k
views
Answer:
A: Best method to do clustering (sub-group) single cell RNA-Seq data?
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
0
replies
1.7k
views
Answer:
A: What is the best way to compare transcriptome between different condition?
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
1
vote
1
reply
1.7k
views
Answer:
A: Exact test vs glmQLFit for comparisons between two groups
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
5
votes
1
reply
2.9k
views
Answer:
A: Unable to create file for tximport
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
0
replies
18k
views
Answer:
A: RNASEQ. WHY NORMALIZE LIBRARY SIZE
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
2.0k
views
Answer:
A: How to compare kallisto and stringtie output
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
1
reply
870
views
Answer:
A: Can remote, but same type, tissue be used as RNA-Seq normal control for tumor st
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
5.4k
views
Answer:
A: How to determine the surface markers in a gene list
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
2
votes
0
replies
5.7k
views
Answer:
A: Single Cell RNAseq Imputation in Seurat
5.4 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
0
votes
0
replies
910
views
Answer:
A: differently expressed genes
5.5 years ago by
Kristoffer Vitting-Seerup
★ 4.0k
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