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Comment: Comment: Normalizing exonic reads and then log transforming or variance stabilising
2.7 years ago A ▴ 40
1
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2
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1.0k
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Normalizing exonic reads and then log transforming or variance stabilising
DEXSeq
2.9 years ago • updated 2.7 years ago A ▴ 40
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0
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1.7k
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Comment: Comment: Can VST be run without runing DESeq or estimateSizeFactors
3.0 years ago A ▴ 40
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3
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1.7k
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Can VST be run without runing DESeq or estimateSizeFactors
DESeq2
3.0 years ago A ▴ 40
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2
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1.6k
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Comment: Comment: Variance stabilising transformation to within given range
3.6 years ago A ▴ 40
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1
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1.6k
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Comment: Comment: Variance stabilising transformation to within given range
3.6 years ago A ▴ 40
0
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0
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1.6k
views
Comment: Comment: Variance stabilising transformation to within given range
3.7 years ago A ▴ 40
0
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1
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1.6k
views
Comment: Comment: Variance stabilising transformation to within given range
3.7 years ago A ▴ 40
4
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9
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1.6k
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Variance stabilising transformation to within given range
DESeq2 scaling vst
updated 3.6 years ago by ★ 13k • written 3.7 years ago by ▴ 40
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0
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1.1k
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Comment: C: technical replicates and normalization/log transformation
4.0 years ago A ▴ 40
0
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1
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1.1k
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Comment: C: technical replicates and normalization/log transformation
4.0 years ago A ▴ 40
1
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5
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1.1k
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technical replicates and normalization/log transformation
deseq2 normalization
updated 4.0 years ago by 42k • written 4.0 years ago by ▴ 40
1
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1
reply
568
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A question for clarification regarding counts input to DESeqDataSetFromMatrix
deseq2
updated 4.3 years ago by 42k • written 4.3 years ago by ▴ 40
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0
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1.6k
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Comment: C: subsetting VST counts from one dataset
4.4 years ago A ▴ 40
2
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2
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1.6k
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subsetting VST counts from one dataset
deseq2 rna-seq
updated 4.4 years ago by 42k • written 4.4 years ago by ▴ 40
0
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0
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843
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Error when trying to read in idat files in methylumi
methylumi 450k methylation methylome
4.7 years ago A ▴ 40
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0
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2.3k
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Comment: C: Batch effects between different sequencing runs
5.0 years ago A ▴ 40
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6
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2.3k
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Batch effects between different sequencing runs
deseq2 batchcorrection
updated 5.0 years ago by ★ 1.4k • written 5.0 years ago by ▴ 40
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0
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2.3k
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Comment: C: Batch effects between different sequencing runs
5.0 years ago A ▴ 40
0
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0
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2.6k
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Comment: C: Extracting VST matrix with batch effects removed
5.0 years ago A ▴ 40
0
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1
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2.6k
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Comment: C: Extracting VST matrix with batch effects removed
5.0 years ago A ▴ 40
0
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1
reply
2.6k
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Comment: C: Extracting VST matrix with batch effects removed
5.0 years ago A ▴ 40
0
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6
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2.6k
views
Extracting VST matrix with batch effects removed
deseq2 batchcorrection
5.0 years ago A ▴ 40
0
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0
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738
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Comment: C: Creating a similarity matrix for genes and not values
5.7 years ago A ▴ 40
0
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2
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738
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Creating a similarity matrix for genes and not values
similarity matrix common genes recurring groups
updated 5.7 years ago by 67k • written 5.7 years ago by ▴ 40
0
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0
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1.5k
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Comment: C: Results table completely wrong for specified contrast of
5.7 years ago A ▴ 40
0
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1
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1.5k
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Comment: C: Results table completely wrong for specified contrast of
updated 5.7 years ago by 25k • written 5.7 years ago by ▴ 40
0
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1
reply
1.5k
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Comment: C: Results table completely wrong for specified contrast of
5.7 years ago A ▴ 40
0
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7
replies
1.5k
views
Results table completely wrong for specified contrast of
DESeq2 logfoldchange counts
updated 5.7 years ago by 42k • written 5.7 years ago by ▴ 40
3
votes
1
reply
1.4k
views
Answer: C: RSubread in cygwin
5.7 years ago A ▴ 40
0
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0
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1.4k
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Comment: C: RSubread in cygwin
5.7 years ago A ▴ 40
2
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1
reply
1.5k
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Data preparation and Machine learning on time course RNAseq data
machine learning deep learning RNAseq MLSeq
5.7 years ago A ▴ 40
0
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0
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2.9k
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Comment: C: mapping FASTQ files to single gene (fluorescent reporter)
5.8 years ago A ▴ 40
0
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1
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2.9k
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Comment: C: mapping FASTQ files to single gene (fluorescent reporter)
5.8 years ago A ▴ 40
0
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0
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2.9k
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Comment: C: mapping FASTQ files to single gene (fluorescent reporter)
5.8 years ago A ▴ 40
0
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0
replies
1.4k
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Comment: C: Can DEXSeq ouput be used directly as an input for IsoformSwitchAnalyzeR
5.8 years ago A ▴ 40
0
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1
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1.4k
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Comment: C: Can DEXSeq ouput be used directly as an input for IsoformSwitchAnalyzeR
5.8 years ago A ▴ 40
1
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5
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1.4k
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Can DEXSeq ouput be used directly as an input for IsoformSwitchAnalyzeR
isoformswitchanalyzer isoform differential isoform usage
written 5.8 years ago by ▴ 40
0
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1
reply
2.9k
views
Comment: C: mapping FASTQ files to single gene (fluorescent reporter)
5.8 years ago A ▴ 40
0
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1
reply
2.9k
views
Comment: C: mapping FASTQ files to single gene (fluorescent reporter)
5.8 years ago A ▴ 40
0
votes
1
reply
2.9k
views
Comment: C: mapping FASTQ files to single gene (fluorescent reporter)
5.8 years ago A ▴ 40
0
votes
1
reply
2.9k
views
Comment: C: mapping FASTQ files to single gene (fluorescent reporter)
5.8 years ago A ▴ 40
0
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9
replies
2.9k
views
mapping FASTQ files to single gene (fluorescent reporter)
rsubread alignment align
5.8 years ago A ▴ 40
0
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0
replies
3.3k
views
Comment: C: Featurecounts issue for counting exons: Not matching total counts mapped for spe
5.8 years ago A ▴ 40
0
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1
reply
3.3k
views
Comment: C: Featurecounts issue for counting exons: Not matching total counts mapped for spe
5.8 years ago A ▴ 40
0
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9
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3.3k
views
Featurecounts issue for counting exons: Not matching total counts mapped for specific gene
featurecounts Rsubread ggbio
updated 5.8 years ago by ★ 3.6k • written 5.8 years ago by ▴ 40
0
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0
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981
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Quantifying reporter expression to validate sequencing
alignment Fastq fasta
5.9 years ago A ▴ 40
0
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0
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1.1k
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Comment: C: Preparation of summarizedExperiment for dexSeq
6.0 years ago A ▴ 40
0
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2
replies
1.1k
views
Preparation of summarizedExperiment for dexSeq
dexseq genomicalignments genomicfeatures genomicranges
6.0 years ago A ▴ 40
0
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0
replies
895
views
Comment: C: Duplication of same sample as if two different samples
6.0 years ago A ▴ 40
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