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Showing top results for tag: TMM • reset
0
votes
1
reply
366
views
RNA-seq, TMM and rRNA counts. Should rRNA genes be removed prior to DE analysis?
mtRNA RNA-seq rRNA TMM
updated 11 weeks ago by ★ 1.5k • written 12 weeks ago by • 0
2
votes
3
replies
430
views
Is TMM apropriated for Welch test between gender?
welch-test TMM
updated 3 months ago by 44k • written 3 months ago by ▴ 20
1
vote
1
reply
308
views
Seeking for edgeR TMM Normalization calcul example
tmm edgeR deseq2
updated 6 months ago by ★ 17k • written 6 months ago by ▴ 650
1
vote
2
replies
445
views
Analyzing dataset with counts and TMM values?
tmm counts gene-expression
7 months ago by trkfs • 0
0
votes
5
replies
1.7k
views
Should I use TPM or TMM to plot gene expression boxplots in RNAseq?
RNASeq TMM DEG TPM DESeq2
updated 19 months ago by 20k • written 19 months ago by ▴ 80
3
votes
1
reply
640
views
TPM or TMM for gene expression correlation and distribution
TMM TPM
updated 20 months ago by 4.3k • written 20 months ago by • 0
0
votes
1
reply
461
views
filtering samples before normalization step
TMM depth gtex normalization sequencing
24 months ago by rheab1230 ▴ 140
0
votes
1
reply
779
views
edgeR normalization
TMM normalization edgeR read_counts
2.0 years ago by rheab1230 ▴ 140
3
votes
10
replies
3.9k
views
TMM or TPM for RNA sequence differential gene expression analysis
TPM DGEA sequence RNA TMM
updated 2.4 years ago by 101k • written 2.4 years ago by • 0
2
votes
4
replies
1.0k
views
TMM on a targeted RNA-Seq dataset
tmm edger Targeted_rnaseq
updated 2.5 years ago by 84k • written 2.5 years ago by ▴ 20
0
votes
3
replies
1.6k
views
Normalize ChIP-seq samples with different signal-to-noise ratio
tmm edger csaw chipseq
updated 2.5 years ago by • 0 • written 2.5 years ago by • 0
2
votes
3
replies
682
views
edgeR TMM normalization with different cell lines, same treatment, and no replicates
RNAseq edgeR TMM normalization
2.5 years ago by RZ • 0
0
votes
0
replies
326
views
Is it possible to use norm_count as an input to edge.R?
expression NGS differential TMM xenabrowser
2.6 years ago by Wojciech • 0
1
vote
3
replies
714
views
Gene transcription determination with RNA-seq data
RNA-seq TMM transcription
updated 2.6 years ago by 55k • written 2.6 years ago by ▴ 10
0
votes
2
replies
924
views
Between sample normalization using TMM approach in edgeR
TMM edgerR normalization
2.7 years ago by OdongoR89 • 0
2
votes
3
replies
922
views
What is the best normalization method for raw RNA-seq counts to be comparable between samples?
RNA-seq TMM normalization
updated 2.8 years ago by 84k • written 2.8 years ago by ▴ 10
6
votes
6
replies
2.9k
views
How to compare expression levels of specific genes between sample groups after generating DEG list?
RNA-seq TMM edgeR
2.9 years ago by Pratik ★ 1.0k
2
votes
4
replies
1.8k
views
How to normalize Kallisto count matrix collapsed at gene-level with TMM/DESeq2?
DESeq2 TMM Kallisto edgeR
3.0 years ago by BioNovice247 ▴ 20
0
votes
2
replies
1.2k
views
How do I determine p-value and fold change for TMM normalized data?
TMM P-value normalization
updated 3.0 years ago by 84k • written 3.0 years ago by • 0
1
vote
3
replies
1.4k
views
TMM normalization and sex effect
edgeR diffbind rnaseq tmm
updated 3.1 years ago by ★ 2.1k • written 3.1 years ago by ▴ 150
7
votes
3
replies
1.4k
views
How to normalize and transform RNA-seq data of different samples for PCA?
TMM PCA RNA-seq edgeR
updated 3.2 years ago by 88k • written 3.2 years ago by ★ 1.0k
1
vote
2
replies
1.0k
views
FPKM for TMM
TMM normalization
updated 3.3 years ago by 84k • written 3.3 years ago by ▴ 60
14
votes
3
replies
6.0k
views
TMM-Normalization
TMM RNAseq-Normalization
2.9 years ago by Filago ▴ 100
0
votes
1
reply
1.2k
views
TMM normalization for data across two sequencing batches
tmm normalization rnaseq
updated 3.5 years ago by 84k • written 3.5 years ago by ▴ 40
2
votes
2
replies
1.4k
views
edgeR normalization via TMM method
RNA-Seq edgeR normalization TMM
updated 4.0 years ago by 84k • written 4.0 years ago by ★ 1.9k
3
votes
1
reply
984
views
which normalization method for my RNA-seq data set?
RNA-Seq edgeR DeSeq2 TMM TPM
updated 4.5 years ago by 145k • written 4.5 years ago by ▴ 10
18
votes
6
replies
18k
views
TMM or TPM normalized counts for visualization?
TPM TMM edgeR normalization
updated 2.4 years ago by • 0 • written 6.3 years ago by ▴ 60
22
votes
15
replies
12k
views
6 follow
How to normalized TPM with TMM method?
rna-seq edgeR TPM TMM
updated 2.5 years ago by ▴ 10 • written 5.2 years ago by ▴ 160
2
votes
4
replies
2.3k
views
CPM plot for individual genes
RNA-Seq CPM edgeR TMM
updated 5.4 years ago by 84k • written 5.4 years ago by ▴ 130
3
votes
2
replies
4.0k
views
TPM and TMM, which should I use for clustering?
tpm tmm clustering
updated 5.6 years ago by 8.3k • written 5.6 years ago by ▴ 110
0
votes
1
reply
1.9k
views
TMM to TPM conversion
TMM TPM
5.6 years ago by demoraesdiogo2017 ▴ 110
0
votes
1
reply
1.8k
views
what is the best method (normalization) to compare RNA-Seq samples from different labs
RNA-Seq TMM Compare Normalization
updated 5.6 years ago by ▴ 380 • written 5.6 years ago by • 0
4
votes
8
replies
2.3k
views
RNA seq - TMM values
RNA-Seq tmm
updated 5.9 years ago by 44k • written 5.9 years ago by • 0
2
votes
1
reply
1.4k
views
RNA-seq edgeR normalization
RNA-Seq edgeR normalization TMM
updated 6.3 years ago by 104k • written 6.3 years ago by ▴ 30
0
votes
1
reply
2.1k
views
edgeR TMM normalization failure
RNA-Seq edgeR TMM DGE
6.6 years ago by pavenhuizen ▴ 90
0
votes
0
replies
2.8k
views
Filter transcripts based on expression value: TPM vs TMM ?
transcriptome tpm tmm
6.9 years ago by Picasa ▴ 650
3
votes
3
replies
9.5k
views
Data for drawing Heatmaps (RNA-seq)
RNA-Seq Heatmap FPKM TPM TMM
updated 7.0 years ago by ▴ 610 • written 7.0 years ago by ▴ 50
0
votes
5
replies
2.5k
views
Regarding TMM normalization before DEG analysis by DEGseq
TMM DEGseq DEG analysis
updated 7.1 years ago by ★ 1.2k • written 7.1 years ago by ★ 1.9k
1
vote
1
reply
6.2k
views
How can I get the normalized counts matrix after doing TMM normalization using edgeR
TMM CPM normalization
updated 7.5 years ago by ▴ 70 • written 7.7 years ago by ▴ 270
2
votes
4
replies
3.3k
views
TMM normalisation on a subtset of the data
TMM normalization edgeR
updated 2.2 years ago by 44k • written 8.7 years ago by ▴ 30
2
votes
11
replies
6.5k
views
TMM normalization for RNA seq data with three replicates (2 samples)
edgeR RNA-Seq replicates TMM
updated 3.2 years ago by 44k • written 8.7 years ago by ▴ 80
5
votes
22
replies
7.3k
views
How to TMM after HTSeq-count?
RNA-Seq HTSeq edgeR TMM
updated 2.2 years ago by 44k • written 8.8 years ago by ▴ 10
2
votes
1
reply
4.0k
views
edegR, export TMM normalized method
RPKM edgeR TMM RNA-Seq CPM
updated 2.1 years ago by 44k • written 9.0 years ago by ▴ 40
2
votes
4
replies
3.9k
views
Comparing TMM and RSEM RNASeq data
TMM RSEM RNA-Seq
updated 21 months ago by 44k • written 9.3 years ago by • 0
7
votes
6
replies
5.0k
views
Within-sample comparison of TMM normalized values?
within-sample TMM RNA-Seq
updated 2.6 years ago by 44k • written 9.9 years ago by ▴ 120
2
votes
18
replies
8.6k
views
TMM normalisation from RSEM raw counts
Rsem RNA-seq rpkm TMM EdgeR
updated 3.0 years ago by 44k • written 10.3 years ago by ▴ 350
5
votes
2
replies
7.9k
views
EdgeR TMM normalisation
RNA-Seq normalisation rpkm TMM EdgeR
updated 3.0 years ago by 44k • written 10.4 years ago by ▴ 350
12
votes
11
replies
28k
views
RNA-seq normalization: How to use TMM and rpkm() in EdgeR
normalization RNA-Seq RPKM TMM EdgeR
updated 3.0 years ago by 44k • written 10.4 years ago by ▴ 350
48 results • Page 1 of 1
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