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0
votes
2
replies
292
views
How to convert Mummer coords output to a Bed file?
nucmer mummer bed
updated 11 weeks ago by 43k • written 11 weeks ago by ▴ 290
0
votes
2
replies
856
views
Why FindMarkers between conditions shows pct.1 and pct.2 as 1 for most of the genes?
seurat FindMarkers scRNA-seq
updated 10 months ago by 43k • written 10 months ago by ▴ 290
3
votes
3
replies
830
views
gtf2bed doesn't give gene_id in the bed file
rnaseq gtf bed
updated 20 months ago by ▴ 700 • written 20 months ago by ▴ 290
1
vote
3
replies
1.8k
views
How to extract required lines of particular chromosome from a gtf file?
RNA-Seq gtf linux command
updated 3.5 years ago by 43k • written 3.5 years ago by ▴ 290
0
votes
6
replies
4.7k
views
Error with snakemake
snakemake python pipeline salmon
updated 3.8 years ago by 20 • written 5.9 years ago by ▴ 290
0
votes
1
reply
706
views
Problem with edgesfile into cytoscape for network plot
RNA-Seq wgcna r cytoscape
updated 3.9 years ago by 3.6k • written 3.9 years ago by ▴ 290
2
votes
14
replies
1.8k
views
Problem with differential analysis between two groups having low raw counts
RNA-Seq edger differential analysis expression
updated 4.0 years ago by 82k • written 4.0 years ago by ▴ 290
2
votes
6
replies
3.9k
views
How to get different outputs for kallisto on multiple samples?
kallisto RNA-Seq geneexpression slurm sbatch
updated 4.2 years ago by 14k • written 4.2 years ago by ▴ 290
1
vote
12
replies
4.2k
views
WGCNA: Problem with selecting soft threshold
RNA-Seq wgcna r network threshold
4.2 years ago by Biologist ▴ 290
4
votes
13
replies
5.2k
views
Stringtie with Gencode gtf file doesn't give any gene_ids or transcript_ids?
RNA-Seq stringtie lncRNA gtf gencode
updated 4.4 years ago by ▴ 10 • written 6.2 years ago by ▴ 290
1
vote
3
replies
982
views
Any R package to check the expression of single gene in multiple cancer types of TCGA?
RNA-Seq tcga r geneexpression
updated 4.6 years ago by 87k • written 4.6 years ago by ▴ 290
12
votes
22
replies
4.8k
views
Classifying the samples based on zscore of a specific gene
RNA-Seq R geneexpression zscore
4.6 years ago by Biologist ▴ 290
0
votes
1
reply
770
views
How to check the expression of a gene using the sequence of that gene?
RNA-Seq lncrna sequence blat ensembl
updated 4.8 years ago by ▴ 280 • written 4.8 years ago by ▴ 290
3
votes
5
replies
12k
views
How to convert featureCounts to FPKM?
RNA-Seq featurecounts fpkm r
updated 5.0 years ago by ▴ 230 • written 5.6 years ago by ▴ 290
1
vote
3
replies
4.2k
views
Why median is NA for some of the group outcomes in survival analysis?
RNA-Seq survival kaplan-meier clinical r
updated 5.1 years ago by 27k • written 5.1 years ago by ▴ 290
3
votes
7
replies
6.8k
views
6 follow
How to make a plot with gProfileR results?
RNA-Seq gprofiler geneexpression pathways plot
updated 5.1 years ago by ▴ 30 • written 5.5 years ago by ▴ 290
3
votes
4
replies
2.9k
views
Error in differential analysis for samples with different time points
RNA-Seq r edger differential analysis
updated 5.1 years ago by 35k • written 5.1 years ago by ▴ 290
6
votes
6
replies
4.5k
views
Estimating gene set enrichment using Fishers exact test
RNA-Seq lncrna gsea fisherstest
5.2 years ago by Biologist ▴ 290
12
votes
15
replies
2.7k
views
Pick soft threshold for co-expression analysis and filtering step
RNA-Seq wgcna coexpression r network
updated 5.3 years ago by 87k • written 5.3 years ago by ▴ 290
4
votes
14
replies
3.4k
views
Differential analysis with microarray data without idat or cel files
R microarray differential analysis gene expression
updated 5.4 years ago by 20 • written 5.5 years ago by ▴ 290
8
votes
6
replies
2.9k
views
Significant pathways need to based on pvalue or adjusted pvalue or q-value?
r RNA-Seq clusterprofiler pathways
updated 5.4 years ago by 82k • written 5.4 years ago by ▴ 290
4
votes
4
replies
1.1k
views
Where Can I find protein-protein interactions data ?
RNA-Seq protein interactions correlation
updated 5.5 years ago by ★ 3.7k • written 5.5 years ago by ▴ 290
5
votes
6
replies
4.2k
views
How to make an Oncoprint for a single gene in R?
RNA-Seq oncoprint plotting geneexpression
updated 5.5 years ago by 87k • written 5.5 years ago by ▴ 290
6
votes
4
replies
4.1k
views
Spearman correlation between between two genes
RNA-Seq correlation spearman geneexpression
updated 5.6 years ago by 35k • written 5.6 years ago by ▴ 290
4
votes
7
replies
3.7k
views
Is logCPM expression data good for plottinng?
RNA-Seq R geneexpression plotting edger
5.6 years ago by Biologist ▴ 290
4
votes
4
replies
4.2k
views
Plot to show expression of a gene between two groups
RNA-Seq r gene expression plot
updated 5.6 years ago by 7.5k • written 5.6 years ago by ▴ 290
5
votes
4
replies
6.1k
views
Z-score calculation from raw counts data
RNA-Seq heatmap zscore logcpm
updated 5.6 years ago by 54k • written 5.6 years ago by ▴ 290
6
votes
10
replies
7.5k
views
Gene set enrichment analysis with edgeR output
RNA-Seq gsea edger genesetenrichment R
updated 5.6 years ago by 35k • written 5.6 years ago by ▴ 290
3
votes
12
replies
2.9k
views
Does FDR value change based Fold change cutoff?
RNA-Seq edgeR r differential expression statistics
updated 5.6 years ago by 43k • written 5.9 years ago by ▴ 290
2
votes
3
replies
1.9k
views
p-value with chi-square test
RNA-Seq statistics p-value significant test r
updated 5.7 years ago by 87k • written 5.7 years ago by ▴ 290
7
votes
8
replies
3.2k
views
Survival plot between low and high expression of gene
RNA-Seq r survival geneexpression
updated 5.7 years ago by 5.7k • written 5.7 years ago by ▴ 290
0
votes
4
replies
2.2k
views
Why survival plots look different with same data?
RNA-Seq tcga survival fpkm survivalanalysis
updated 5.7 years ago by 8.9k • written 5.7 years ago by ▴ 290
4
votes
4
replies
3.3k
views
How to make a survival plot for a gene between High expression and low expression samples?
RNA-Seq R survival plot tcga
5.8 years ago by Biologist ▴ 290
10
votes
18
replies
3.7k
views
How to construct Co-expression network between Coding and lncRNAs?
RNA-Seq correlation lncrna co-expression network r
updated 3.0 years ago by 87k • written 5.8 years ago by ▴ 290
5
votes
22
replies
3.3k
views
Differential analysis between two cell lines
R RNA-Seq edgeR differential analysis
5.8 years ago by Biologist ▴ 290
5
votes
12
replies
2.1k
views
How to make scatterplot with two different results sets?
RNA-Seq r scatterplot plotting
updated 5.8 years ago by 11k • written 5.8 years ago by ▴ 290
2
votes
6
replies
1.4k
views
Differential analysis show different results
RNA-Seq clustering expression rna-seq gene
5.9 years ago by Biologist ▴ 290
1
vote
5
replies
3.5k
views
stringtie merged gtf doesn't give any gene expression columns
RNA-Seq stringtie hisat2 merge
updated 5.9 years ago by 87k • written 5.9 years ago by ▴ 290
2
votes
6
replies
5.0k
views
How to make the script work with stringtie command first and then merge the outputs?
RNA-Seq stringtie merge bash linux
updated 6.1 years ago by 35k • written 6.1 years ago by ▴ 290
9
votes
19
replies
3.8k
views
Error in extracting Counts from the bam file using htseq-count
RNA-Seq htseq counts bam
updated 6.2 years ago by 35k • written 6.2 years ago by ▴ 290
0
votes
1
reply
1.5k
views
script to write the path of all the output files of Cufflinks in a text file for Cuffmerge?
RNA-Seq cuffmerge cufflinks
updated 6.2 years ago by 3.2k • written 6.2 years ago by ▴ 290
3
votes
11
replies
3.4k
views
Identifying differentially expressed lncRNA's from RNA-Seq data
RNA-Seq lncrna ngs
updated 6.4 years ago by 104k • written 6.4 years ago by ▴ 290
1
vote
1
reply
4.9k
views
How to cluster the annotation in the heat map?
r heatmap clustering rna-seq
updated 6.6 years ago by 87k • written 6.6 years ago by ▴ 290
6
votes
21
replies
3.8k
views
How to make a color plot out of three columns from a dataframe in R?
r heatmap plot
7.0 years ago by Biologist ▴ 290
44 results • Page 1 of 1
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