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Plotting Gene Ontology analysis results and questions about Fold Enrichment and other parameters
Ontology Enrichment Gene GO
updated 9 hours ago by • 0 • written 2.7 years ago by ▴ 100
2
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3
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2.0k
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Weird behaviour - WGCNA hub analysis results in Cytoscape through CytoHubba plugin change every time I run it!
rnaseq wgcna cytoscape hubs cytohubba
updated 7 weeks ago by ▴ 580 • written 2.4 years ago by ▴ 100
5
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5
replies
2.9k
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WGCNA HeatMap correlating modules and sample conditions
RNAseq heatmap WGCNA conditions clustering
updated 8 months ago by 147k • written 2.7 years ago by ▴ 100
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4
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2.3k
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WGCNA Analysis - blockwiseModules data processing
WGCNA blockwiseModules
updated 12 months ago by 147k • written 15 months ago by ▴ 100
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344
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WGCNA Analysis - TOM matrix generation time estimation
WGCNA TOM R
15 months ago by Raito92 ▴ 100
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1
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1.0k
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Comment: Comment: Looking for tools to individuate gene-gene correlations from a few candidates
23 months ago by Raito92 ▴ 100
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3
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1.0k
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Looking for tools to individuate gene-gene correlations from a few candidates
CoExpNetViz Cytoscape network coexpression RNA-Seq
updated 23 months ago by 9.8k • written 23 months ago by ▴ 100
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680
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Cytoscape plugin CoExpNetViz giving unreproducible results over time
CoExpNetViz Cytoscape network coexpression RNA-Seq
updated 22 months ago by ▴ 280 • written 23 months ago by ▴ 100
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660
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KEGG pathway annotation and enrichment analysis on an unannotated organism
kegga KEGG enrichment annotation DEG
24 months ago by Raito92 ▴ 100
1
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1
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2.3k
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WGCNA exportNetworkToCytoscape weight threshold
co-expression RNA-Seq WGCNA Cytoscape
updated 2.7 years ago by ▴ 620 • written 2.7 years ago by ▴ 100
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1
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2.9k
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Comment: Comment: WGCNA HeatMap correlating modules and sample conditions
2.7 years ago by Raito92 ▴ 100
5
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9
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4.7k
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8 follow
Converting an output de-novo transcriptome assembled with Trinity to a .gff3 file
Trinity
updated 11 weeks ago by • 0 • written 5.2 years ago by ▴ 100
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2.0k
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Comment: C: How to merge two gff3 files?
3.8 years ago by Raito92 ▴ 100
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3
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2.0k
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How to merge two gff3 files?
gff3 merge
updated 3.8 years ago by 15k • written 3.8 years ago by ▴ 100
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0
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804
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A RNASeq gene expression browser
RNA-Seq browser gene expression efp
updated 3.9 years ago by 20 • written 4.0 years ago by ▴ 100
3
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3
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2.1k
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Trobules using R function goana to perform GO enrichment analysis
r rnaseq go bioconductor de
updated 4.4 years ago by 20 • written 4.6 years ago by ▴ 100
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0
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711
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How to analyze RNA Targeted (Gene Panel) Ampliseq data?
ampliseq rna targeted amplicons panel
4.4 years ago by Raito92 ▴ 100
0
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0
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2.1k
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Comment: C: Trobules using R function goana to perform GO enrichment analysis
4.6 years ago by Raito92 ▴ 100
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0
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1.3k
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Comment: C: Performing GO enrichment analyis on DE genes
4.6 years ago by Raito92 ▴ 100
1
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3
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1.3k
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Performing GO enrichment analyis on DE genes
de go enrichment rnaseq
4.6 years ago by Raito92 ▴ 100
0
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1
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2.3k
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Comment: C: Trimmomatic parameters for Trinity transcriptome assembling
4.7 years ago by Raito92 ▴ 100
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1
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2.3k
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Comment: C: Trimmomatic parameters for Trinity transcriptome assembling
4.7 years ago by Raito92 ▴ 100
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0
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1.1k
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Comment: C: min_contig_length parameter in Trinity - Isoforms discrimination
4.7 years ago by Raito92 ▴ 100
0
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1
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2.3k
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Comment: C: Trimmomatic parameters for Trinity transcriptome assembling
4.7 years ago by Raito92 ▴ 100
1
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2
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1.1k
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min_contig_length parameter in Trinity - Isoforms discrimination
transcriptome assembly trinity
4.7 years ago by Raito92 ▴ 100
3
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7
replies
2.3k
views
Trimmomatic parameters for Trinity transcriptome assembling
trimmomatic trinity Assembly transcriptome
4.7 years ago by Raito92 ▴ 100
0
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1
reply
2.9k
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Comment: C: How to distinguish between 16S chloroplast reads and real bacteria ones?
5.0 years ago by Raito92 ▴ 100
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2
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2.9k
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Comment: C: How to distinguish between 16S chloroplast reads and real bacteria ones?
5.0 years ago by Raito92 ▴ 100
4
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9
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2.9k
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How to distinguish between 16S chloroplast reads and real bacteria ones?
metagenomics primers qiime2 sequencing 16s
updated 5.0 years ago by 3.8k • written 5.0 years ago by ▴ 100
0
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1
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2.9k
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Comment: C: How to distinguish between 16S chloroplast reads and real bacteria ones?
5.0 years ago by Raito92 ▴ 100
3
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3
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946
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Most recent tools for circadian gene expression analysis (in plants)
circadian circadian rhythm circadian genes
updated 5.1 years ago by 12k • written 5.2 years ago by ▴ 100
0
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0
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1.7k
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Comment: C: How to perform KEGG enrichment analysis for DE genes from a de-novo transcriptom
5.1 years ago by Raito92 ▴ 100
4
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2
replies
1.7k
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How to perform KEGG enrichment analysis for DE genes from a de-novo transcriptome?
KEGG KEGG Enrichment
5.1 years ago by Raito92 ▴ 100
2
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1
reply
1.5k
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GOplot error - Gene Ontology plot generation errors
goplot gene ontology trinity bioconductor
5.2 years ago by Raito92 ▴ 100
0
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1
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4.7k
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Comment: C: Converting an output de-novo transcriptome assembled with Trinity to a .gff3 fil
5.2 years ago by Raito92 ▴ 100
5
votes
5
replies
6.4k
views
6 follow
GO enrichment analysis graphs after goseq: any easy solutions?
go enrichment gene ontology go terms goseq
updated 23 months ago by • 0 • written 5.2 years ago by ▴ 100
0
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2
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1.8k
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Trinity RSEM Bowtie2 align_and_estimate_abundance script error
trinity rsem bowtie2 RNA-Seq
updated 5.2 years ago by 147k • written 5.2 years ago by ▴ 100
0
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0
replies
776
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Molecular timetable method based tools for circadian gene expression?
circadian genes circadian gene expression
5.2 years ago by Raito92 ▴ 100
1
vote
0
replies
946
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Comment: C: Most recent tools for circadian gene expression analysis (in plants)
5.2 years ago by Raito92 ▴ 100
1
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3
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974
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mpiblast returning an error with a specific FASTA file - Unable to open files
mpiblast blast blastx
5.3 years ago by Raito92 ▴ 100
0
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0
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974
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Answer: A: mpiblast returning an error with a specific FASTA file - Unable to open files
5.3 years ago by Raito92 ▴ 100
0
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0
replies
974
views
Comment: C: mpiblast returning an error with a specific FASTA file - Unable to open files
5.3 years ago by Raito92 ▴ 100
0
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1
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1.1k
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Comment: C: How to retrieve the original protein code before it has been published on NCBI a
5.3 years ago by Raito92 ▴ 100
1
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3
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1.1k
views
How to retrieve the original protein code before it has been published on NCBI as XP_?
genbank accession number annotation transcripts
5.3 years ago by Raito92 ▴ 100
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