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Comment: Comment: Question about aggregating p values from different DE analysis methods for the s
2.6 years ago by mmitra ▴ 60
8
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2
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1.7k
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Question about aggregating p values from different DE analysis methods for the same RNA-seq dataset
fisher-test p-value RNA-seq
2.6 years ago by mmitra ▴ 60
0
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0
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3.6k
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Comment: Comment: Batch effect correction & normalization after training/test split for gene expre
2.6 years ago by mmitra ▴ 60
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0
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1.4k
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Comment: Comment: Retrieve transcription factors from gene set using biomaRt
3.2 years ago by mmitra ▴ 60
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0
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3.6k
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Comment: Comment: Batch effect correction & normalization after training/test split for gene expre
3.2 years ago by mmitra ▴ 60
0
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0
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3.6k
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Comment: Comment: Batch effect correction & normalization after training/test split for gene expre
3.2 years ago by mmitra ▴ 60
0
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5
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3.6k
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Batch effect correction & normalization after training/test split for gene expression data
RNA-seq batch-effect normalization
updated 18 months ago by 45k • written 3.2 years ago by ▴ 60
1
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0
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1.4k
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Comment: Comment: Feature selection for a binary classifier using mixed cancer type samples
3.2 years ago by mmitra ▴ 60
4
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2
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1.4k
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Feature selection for a binary classifier using mixed cancer type samples
genes training-test mixed samples split feature DE selection classifier
3.2 years ago by mmitra ▴ 60
0
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0
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1.7k
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Comment: Comment: Differential peak analysis for ATAC-seq using transformed and normalized CPM ma
3.2 years ago by mmitra ▴ 60
6
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3
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1.7k
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Differential peak analysis for ATAC-seq using transformed and normalized CPM matrix
ATAC-seq differential normalization matrix analysis CPM
3.2 years ago by mmitra ▴ 60
7
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10
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5.9k
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6 follow
Batch effect correction to compare differentially expressed genes across datasets
batch batch-effect DESeq2 rna-seq
updated 18 months ago by 45k • written 3.5 years ago by ▴ 60
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5.9k
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Comment: Comment: Batch effect correction to compare differentially expressed genes across dataset
3.5 years ago by mmitra ▴ 60
0
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0
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5.9k
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Comment: Comment: Batch effect correction to compare differentially expressed genes across dataset
3.5 years ago by mmitra ▴ 60
0
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1
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5.9k
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Comment: Comment: Batch effect correction to compare differentially expressed genes across dataset
3.5 years ago by mmitra ▴ 60
0
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1
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4.5k
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Comment: C: Tophat 'prep_reads error": beginning of quality values record not found!
updated 5.9 years ago by 45k • written 10.1 years ago by ▴ 60
0
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0
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2.9k
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Comment: C: Differential gene expression analysis: how different could be the number of samp
6.5 years ago by mmitra ▴ 60
1
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2
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2.9k
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Differential gene expression analysis: how different could be the number of samples for the two conditions being compared?
rna-seq deseq2 number of samples
6.5 years ago by mmitra ▴ 60
0
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0
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2.3k
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Comment: C: How to perform lncRNA differential gene expression analysis (unstranded)?
6.7 years ago by mmitra ▴ 60
1
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2
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2.3k
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How to perform lncRNA differential gene expression analysis (unstranded)?
RNA-Seq DEseq2 lncRNA unstranded lincRNAs
updated 6.7 years ago by 13k • written 6.7 years ago by ▴ 60
0
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0
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2.6k
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Comment: C: Converting .bowtie files to .sam
updated 7.1 years ago by 154k • written 7.1 years ago by ▴ 60
0
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1
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2.6k
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Comment: C: Converting .bowtie files to .sam
7.1 years ago by mmitra ▴ 60
0
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5
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2.6k
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Converting .bowtie files to .sam
ChIP-Seq sequencing alignment bowtie sam
7.1 years ago by mmitra ▴ 60
0
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0
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13k
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Comment: C: Trim Poly-A Tail And Trailing Nucleotides
7.9 years ago by mmitra ▴ 60
0
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0
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13k
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Comment: C: Trim Poly-A Tail And Trailing Nucleotides
7.9 years ago by mmitra ▴ 60
0
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1
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13k
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Comment: C: Trim Poly-A Tail And Trailing Nucleotides
7.9 years ago by mmitra ▴ 60
1
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0
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3.8k
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Comment: C: Obtain Ensembl transcript ids that contain retained introns
8.7 years ago by mmitra ▴ 60
0
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1
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3.8k
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Comment: C: Obtain Ensembl transcript ids that contain retained introns
8.7 years ago by mmitra ▴ 60
0
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1
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3.8k
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Comment: C: Obtain Ensembl transcript ids that contain retained introns
8.7 years ago by mmitra ▴ 60
0
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0
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3.8k
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Comment: C: Obtain Ensembl transcript ids that contain retained introns
8.8 years ago by mmitra ▴ 60
4
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8
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3.8k
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Obtain Ensembl transcript ids that contain retained introns
RNA-Seq Ensembl Retained introns Splicing
updated 8.8 years ago by ▴ 280 • written 8.8 years ago by ▴ 60
0
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0
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25k
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Comment: C: Bed File With Introns Only
8.8 years ago by mmitra ▴ 60
2
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0
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7.1k
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Answer: A: [Beginner] Introduction to bioinformatics file types
10.1 years ago by mmitra ▴ 60
0
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1
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4.5k
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Comment: C: Tophat 'prep_reads error": beginning of quality values record not found!
10.1 years ago by mmitra ▴ 60
0
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10
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4.5k
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Tophat 'prep_reads error": beginning of quality values record not found!
RNA-Seq fastq tophat
updated 3.1 years ago by 45k • written 10.1 years ago by ▴ 60
0
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1
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4.5k
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Comment: C: Tophat 'prep_reads error": beginning of quality values record not found!
10.1 years ago by mmitra ▴ 60
0
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1
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4.5k
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Comment: Comment: Tophat 'prep_reads error": beginning of quality values record not found!
updated 4.0 years ago by 45k • written 10.1 years ago by ▴ 60
0
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0
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4.0k
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Comment: C: How to prepare a bam file containing reads of same length?
10.1 years ago by mmitra ▴ 60
0
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1
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4.0k
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Comment: C: How to prepare a bam file containing reads of same length?
10.1 years ago by mmitra ▴ 60
2
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4
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4.0k
views
How to prepare a bam file containing reads of same length?
RNA-Seq tophat Bam
updated 3.0 years ago by 45k • written 10.1 years ago by ▴ 60
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