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1
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0
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624
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Differential abundance analysis of phosphoproteomics data with multiple time points and conditions
Proteomics DifferentialRegulation limma
15 months ago svlachavas ▴ 830
0
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0
replies
931
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Annotating copy number alterations per sample using CNVRanger R package and return of duplicated gene symbols
CopyNumberVariation CNVRanger GenomicRanges
2.8 years ago svlachavas ▴ 830
0
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0
replies
832
views
Proper normalization of batch effected corrected raw rsem rnaseq values for downstream unsupervised analyses
limma RNASeq rsem Normalization
3.0 years ago svlachavas ▴ 830
0
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1
reply
1.9k
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Comment: Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels
3.3 years ago svlachavas ▴ 830
0
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0
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1.9k
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Comment: Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels
3.3 years ago svlachavas ▴ 830
0
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1
reply
1.9k
views
Comment: Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels
3.3 years ago svlachavas ▴ 830
5
votes
9
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1.9k
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Time series DE gene analysis with edgeR where specific timepoints have NA levels across different patients
edgeR RNASeq DifferentialExpression TimeCourse
updated 3.3 years ago by 67k • written 3.3 years ago by ▴ 830
0
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1
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1.9k
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Comment: Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels
3.3 years ago svlachavas ▴ 830
0
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0
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2.8k
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Comment: Comment: Weird output of biomaRt R package querying Ensembl IDs (hg19/grch37) to retrieve
3.5 years ago svlachavas ▴ 830
0
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1
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2.8k
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Comment: Comment: Weird output of biomaRt R package querying Ensembl IDs (hg19/grch37) to retrieve
3.5 years ago svlachavas ▴ 830
0
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1
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2.8k
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Comment: Comment: Weird output of biomaRt R package querying Ensembl IDs (hg19/grch37) to retrieve
3.5 years ago svlachavas ▴ 830
6
votes
6
replies
2.8k
views
Weird output of biomaRt R package querying Ensembl IDs (hg19/grch37) to retrieve gene symbols
biomaRt annnotation RNASeq AnnotationDbi
3.5 years ago svlachavas ▴ 830
0
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0
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4.1k
views
Comment: Comment: Issues with installation status of R package rtracklayer
3.9 years ago svlachavas ▴ 830
5
votes
5
replies
4.1k
views
Issues with installation status of R package rtracklayer
rtracklayer Bioconductor
updated 2.8 years ago by 4.1k • written 3.9 years ago by ▴ 830
3
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4
replies
2.1k
views
Error with R package curatedTCGAData while trying to download TCGA MultiAssayExperiments
MultiAssayExperiment curatedTCGAData TCGAutils
4.0 years ago svlachavas ▴ 830
1
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0
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2.1k
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Comment: Comment: Error with R package curatedTCGAData while trying to download TCGA MultiAssayExp
4.0 years ago svlachavas ▴ 830
0
votes
2
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2.1k
views
Comment: Comment: Error with R package curatedTCGAData while trying to download TCGA MultiAssayExp
4.0 years ago svlachavas ▴ 830
3
votes
3
replies
1.4k
views
Error in MAE experiment regarding the replacement of internal assays with different number of features
MultiAssayExperiment curatedTCGAData TCGAutils
updated 4.0 years ago by 700 • written 4.0 years ago by ▴ 830
0
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1
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1.4k
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Comment: Comment: Error in MAE experiment regarding the replacement of internal assays with differ
4.0 years ago svlachavas ▴ 830
6
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6
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2.6k
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Transformation of raw RSEM gene expression estimates with variance stabilizing transformation and tximport R package
DESeq2 VST rsem tximport
4.0 years ago svlachavas ▴ 830
0
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0
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2.6k
views
Comment: Comment: Transformation of raw RSEM gene expression estimates with variance stabilizing t
4.0 years ago svlachavas ▴ 830
0
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1
reply
2.6k
views
Comment: Comment: Transformation of raw RSEM gene expression estimates with variance stabilizing t
4.0 years ago svlachavas ▴ 830
0
votes
1
reply
2.6k
views
Comment: Comment: Transformation of raw RSEM gene expression estimates with variance stabilizing t
4.0 years ago svlachavas ▴ 830
0
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0
replies
3.5k
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Comment: C: Converstion of Ranged Summarized Experiment to Data Frame
4.1 years ago svlachavas ▴ 830
0
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1
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1.5k
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Comment: C: Implementation of MultiAssayExperiment and curatedTCGAData R packages for querin
4.1 years ago svlachavas ▴ 830
3
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3
replies
1.5k
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Implementation of MultiAssayExperiment and curatedTCGAData R packages for quering and prosessing multi-omics cancer datasets
MultiAssayExperiment curatedTCGAData TCGAutils
updated 4.0 years ago by 700 • written 4.1 years ago by ▴ 830
0
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1
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3.5k
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Answer: A: Converstion of Ranged Summarized Experiment to Data Frame
4.1 years ago svlachavas ▴ 830
0
votes
0
replies
748
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Interpretation of mroast p-value results for gene set testing of specific molecular signatures using microarray data
mroast camera gene set testing
4.1 years ago svlachavas ▴ 830
0
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0
replies
3.8k
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Comment: C: Possible batch effect correction with RNA-Seq data when the batches do not conta
4.6 years ago svlachavas ▴ 830
0
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1
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3.8k
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Comment: C: Possible batch effect correction with RNA-Seq data when the batches do not conta
4.6 years ago svlachavas ▴ 830
2
votes
5
replies
3.8k
views
Possible batch effect correction with RNA-Seq data when the batches do not contain both biological conditions for DE analysis
batch effect limma rna seq DE
updated 4.6 years ago by ★ 13k • written 4.6 years ago by ▴ 830
0
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0
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2.5k
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Comment: C: How to analyze pre-processed RNA-Seq data from GEO based on the deseq R package
4.6 years ago svlachavas ▴ 830
0
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1
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2.5k
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Comment: C: How to analyze pre-processed RNA-Seq data from GEO based on the deseq R package
4.6 years ago svlachavas ▴ 830
3
votes
5
replies
2.5k
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How to analyze pre-processed RNA-Seq data from GEO based on the deseq R package for filtering and DE analysis
deseq rna-seq filtering DE deseq2
updated 4.6 years ago by 42k • written 4.6 years ago by ▴ 830
0
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1
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1.5k
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Comment: C: Annotation issue while analyzing processed Affymetrix Human Exon 1.0 ST Arrays f
4.7 years ago svlachavas ▴ 830
5
votes
5
replies
1.5k
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Annotation issue while analyzing processed Affymetrix Human Exon 1.0 ST Arrays from Geoquery
affycoretools huex10sttranscriptcluster.db affymetrix Geoquery
updated 4.7 years ago by 67k • written 4.7 years ago by ▴ 830
0
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0
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1.5k
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Comment: C: Annotation issue while analyzing processed Affymetrix Human Exon 1.0 ST Arrays f
4.7 years ago svlachavas ▴ 830
0
votes
0
replies
1.2k
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Answer: A: Joint pathway Analysis using both gene and metabolite data sets
4.7 years ago svlachavas ▴ 830
0
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0
replies
1.5k
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Comment: C: Weird error in Rstudio trying to retreive and load genomic data from external da
4.7 years ago svlachavas ▴ 830
0
votes
1
reply
1.5k
views
Comment: C: Weird error in Rstudio trying to retreive and load genomic data from external da
4.7 years ago svlachavas ▴ 830
2
votes
4
replies
1.5k
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Weird error in Rstudio trying to retreive and load genomic data from external databases
R software error Bioconductor
4.7 years ago svlachavas ▴ 830
0
votes
1
reply
1.4k
views
Comment: C: Difference in dimensionality reduction plots based on DESeq2 R package and core
4.8 years ago svlachavas ▴ 830
0
votes
1
reply
1.4k
views
Comment: C: Difference in dimensionality reduction plots based on DESeq2 R package and core
4.8 years ago svlachavas ▴ 830
4
votes
5
replies
1.4k
views
Difference in dimensionality reduction plots based on DESeq2 R package and core functions for RNA-Seq data
deseq2 vst pca cpm
4.8 years ago svlachavas ▴ 830
0
votes
0
replies
1.4k
views
Comment: C: Apply different cutoffs with edgeR pipeline and glmTreat for RNA-Seq DEG analysi
4.8 years ago svlachavas ▴ 830
1
vote
0
replies
2.7k
views
Answer: A: How to perform a differential expression analysis from TCGA file EBPlusPlusAdjus
5.1 years ago svlachavas ▴ 830
1
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0
replies
3.6k
views
Answer: A: RNASeq DE analysis starts from different DESeq2 normalized data, TMM normalized
5.1 years ago svlachavas ▴ 830
1
vote
1
reply
1.9k
views
Answer: A: Finding gene targets for a list of transcription factors
5.2 years ago svlachavas ▴ 830
0
votes
0
replies
2.1k
views
Comment: C: Perform correlation analysis between miRNA and mRNA gene expression data on the
5.6 years ago svlachavas ▴ 830
0
votes
1
reply
2.1k
views
Comment: C: Perform correlation analysis between miRNA and mRNA gene expression data on the
5.6 years ago svlachavas ▴ 830
532 results • Page 1 of 11
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