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28
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too few differentially expressed genes with large number of replicates, using each of DESeq2, edgeR and Limma-voom
degs RNA-Seq
updated 5.2 years ago by ★ 1.0k • written 6.7 years ago by ▴ 790
0
votes
1
reply
1.8k
views
minimum system requirement for gwas
system set up gwas server
updated 5.7 years ago by ★ 18k • written 5.7 years ago by ▴ 790
4
votes
3
replies
1.5k
views
Why are lowly expressed genes less likely to detect as DE?
RNA-Seq de
updated 5.8 years ago by 105k • written 5.8 years ago by ▴ 790
4
votes
4
replies
1.5k
views
Looking for help and comments for my preprint paper
preprint paper Differential Expression RNA-seq
updated 6.2 years ago by 47k • written 6.2 years ago by ▴ 790
2
votes
2
replies
1.1k
views
Best plot for two nominal and one count variable
plot nominal variable count variable
updated 6.3 years ago by 105k • written 6.3 years ago by ▴ 790
5
votes
3
replies
1.4k
views
What can be considered as novelty in GWAS?
GWAS SNP array cardiovascular SNP
updated 6.4 years ago by 21k • written 6.4 years ago by ▴ 790
1
vote
9
replies
3.6k
views
How to detect GC content bias and correct them
GC content RNA-Seq detection correction
7.0 years ago by statfa ▴ 790
0
votes
5
replies
1.9k
views
Number of samples in each lane in GEO datasets
RNA-Seq lane gc-content
7.0 years ago by statfa ▴ 790
2
votes
4
replies
2.5k
views
How to cite galaxy?
galaxi cite
7.0 years ago by statfa ▴ 790
1
vote
1
reply
1.4k
views
how to run models on 100 simualted data automatically?
RNA-Seq simulation models
updated 7.0 years ago by 88k • written 7.0 years ago by ▴ 790
0
votes
9
replies
2.7k
views
how to select genes after obtaining read counts
gtf RNA-Seq read counts genes
7.0 years ago by statfa ▴ 790
6
votes
14
replies
3.0k
views
What GTF file should I use in htseq?
hisat htseq polyester RNA-Seq
updated 7.1 years ago by 148k • written 7.1 years ago by ▴ 790
0
votes
8
replies
3.2k
views
What's the criteria to simulate RNA-seq read counts table
simulation RNA-Seq count table
7.1 years ago by statfa ▴ 790
2
votes
4
replies
2.3k
views
Simulating rna-seq data using Polyester package
simulation polyester RNA-seq
7.1 years ago by statfa ▴ 790
0
votes
9
replies
4.8k
views
How to simulate RNA-seq raw read counts matrix
RNA-Seq simulate read counts
updated 7.1 years ago by 35k • written 7.1 years ago by ▴ 790
0
votes
4
replies
3.1k
views
Where to simulate RNA-seq data online
Polyester simulate RNA-seq
updated 7.1 years ago by ▴ 990 • written 7.1 years ago by ▴ 790
0
votes
0
replies
1.2k
views
htseq ignores contiges with zero reads
htseq
7.2 years ago by statfa ▴ 790
7
votes
3
replies
19k
views
how to view. Rdata files in R
RNA-Seq rdata
7.5 years ago by statfa ▴ 790
15
votes
12
replies
3.7k
views
Ajdust for GC content bias in RNA-seq DE analysis.
gc content normalization
updated 7.6 years ago by 105k • written 7.6 years ago by ▴ 790
4
votes
1
reply
4.8k
views
How to use log2FoldChange in RNA-seq DE analysis
FC log2FoldChange RNA-seq
updated 7.6 years ago by ★ 4.1k • written 7.6 years ago by ▴ 790
1
vote
2
replies
1.3k
views
how to use matplot when you have replicates?
matplot read counts
7.6 years ago by statfa ▴ 790
2
votes
4
replies
3.0k
views
How to know which norm method should be used for RNA-seq read counts?
Normalization RNA-seq
7.6 years ago by statfa ▴ 790
5
votes
10
replies
4.1k
views
Plot expression of genes over time
plot gene expression time
updated 7.9 years ago by 27k • written 7.9 years ago by ▴ 790
3
votes
4
replies
2.4k
views
What does benchmark method exactly mean?
benchmark methods edgeR DEG RNA-seq
updated 7.9 years ago by ★ 3.6k • written 7.9 years ago by ▴ 790
4
votes
4
replies
16k
views
Scaling data using Pheatmap
scale pheatmap
7.9 years ago by statfa ▴ 790
0
votes
0
replies
2.1k
views
How to further filter DE genes in EBSeq-HMM?
EBSeq-HMM DE genes
7.9 years ago by statfa ▴ 790
2
votes
4
replies
1.6k
views
how to categorize genes by their expression levels in RNA-seq?
Gene Expression RNA-seq categorize
updated 7.9 years ago by ★ 2.8k • written 7.9 years ago by ▴ 790
12
votes
8
replies
3.5k
views
How to change depth of sequence in RNA-seq fastq files
depth of sequence RNA-Seq
8.0 years ago by statfa ▴ 790
3
votes
5
replies
2.2k
views
statistical analysis of WES
WES CNV statistics analysis NGS
updated 8.3 years ago by 47k • written 8.9 years ago by ▴ 790
8
votes
11
replies
2.2k
views
Sending files to Galaxy
Galaxy fastq
8.3 years ago by statfa ▴ 790
7
votes
9
replies
2.5k
views
statistical analysis of RNA-seq
RNA-Seq Statistics
8.3 years ago by statfa ▴ 790
9
votes
6
replies
3.3k
views
Calculation of read counts in RNA-seq
read counts RNA-seq
updated 8.3 years ago by 4.1k • written 8.3 years ago by ▴ 790
9
votes
7
replies
3.9k
views
How to use Galaxy to obtain read counts from SRA files
Galaxy read count SRA file
8.3 years ago by statfa ▴ 790
8
votes
8
replies
4.1k
views
obtain RNA-seq read counts online
read counts RNA-seq online
updated 8.3 years ago by 13k • written 8.3 years ago by ▴ 790
1
vote
2
replies
2.6k
views
RNA-seq time series data analysis ********* updated
multiDE DEG main effects
8.3 years ago by statfa ▴ 790
5
votes
4
replies
1.8k
views
Detection of DE genes among different tissues of an organism during time - RNA seq
detection DE-genes multi-treatments time-series
updated 19 months ago by 44k • written 8.5 years ago by ▴ 790
11
votes
8
replies
2.3k
views
defintion of extremely low coverage
coverage Read Depth
updated 8.6 years ago by 13k • written 8.6 years ago by ▴ 790
13
votes
16
replies
3.6k
views
NGS analysis on windows
NGS bam cnv
updated 8.7 years ago by ▴ 370 • written 8.8 years ago by ▴ 790
16
votes
12
replies
9.7k
views
Basic SAMtools tutorial
samtools
updated 21 months ago by 44k • written 8.8 years ago by ▴ 790
154
votes
13
replies
29k
views
Alignment and mapping
alignment next-gen mapping
updated 8.9 years ago by 8.4k • written 8.9 years ago by ▴ 790
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