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Comment: Comment: Ensembl reduced functionality: 10th March-16th April 2020
2.3 years ago by dpc ▴ 250
3
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2
replies
3.3k
views
How to convert merged_abundance-table into a biom file?
metaphlan biom wgs metagenome
updated 2.8 years ago by ▴ 10 • written 4.4 years ago by ▴ 250
1
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1
reply
1.6k
views
Process to merge biom files
metaphlan biom wgs
updated 2.9 years ago by • 0 • written 4.4 years ago by ▴ 250
0
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0
replies
695
views
How to map enriched pathways on whole metacyc pathway map?
MetaCyc
3.3 years ago by dpc ▴ 250
0
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0
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1.5k
views
Comment: Comment: How to convert gene names to GO term?
3.4 years ago by dpc ▴ 250
0
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1
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587
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Does genes for different subunits of a protein have different KO IDs?
kegg
updated 3.4 years ago by 3.8k • written 3.4 years ago by ▴ 250
0
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1
reply
1.4k
views
Comment: Comment: How to convert gene names to EC numbers?
3.4 years ago by dpc ▴ 250
0
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4
replies
1.4k
views
How to convert gene names to EC numbers?
database
updated 3.4 years ago by 15k • written 3.4 years ago by ▴ 250
0
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1
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1.5k
views
Comment: Comment: How to convert gene names to GO term?
3.4 years ago by dpc ▴ 250
0
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1
reply
1.5k
views
Comment: Comment: How to convert gene names to GO term?
3.4 years ago by dpc ▴ 250
0
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6
replies
1.5k
views
How to convert gene names to GO term?
databse
3.4 years ago by dpc ▴ 250
0
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0
replies
457
views
How to find the genes within MetaCyc pathways?
database
3.4 years ago by dpc ▴ 250
0
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0
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478
views
How to make a genomic content table that has species as the rows and functions (pathways or genes) on the column?
metagenomics
3.4 years ago by dpc ▴ 250
0
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1
reply
573
views
How to get all the metabolic pathways present within a bacteria species?
database
updated 3.5 years ago by 148k • written 3.5 years ago by ▴ 250
5
votes
4
replies
2.9k
views
Difference between Meta'omics and Multi'omics
Omics
updated 3.5 years ago by ▴ 180 • written 3.6 years ago by ▴ 250
0
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1
reply
2.9k
views
Comment: Comment: Difference between Meta'omics and Multi'omics
updated 3.6 years ago by 44k • written 3.6 years ago by ▴ 250
0
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2
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2.7k
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Comment: Comment: Which formula of Bray-Curtis beta diversity index should be used for microbiome
3.7 years ago by dpc ▴ 250
0
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0
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2.4k
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Comment: Comment: How can I get the Shannon and observed alpha diversity Index value?
3.7 years ago by dpc ▴ 250
2
votes
4
replies
2.7k
views
Which formula of Bray-Curtis beta diversity index should be used for microbiome beta diversity analysis?
diversity
updated 3.7 years ago by 3.2k • written 3.7 years ago by ▴ 250
3
votes
3
replies
2.4k
views
How can I get the Shannon and observed alpha diversity Index value?
R
3.7 years ago by dpc ▴ 250
0
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0
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1.0k
views
Should I calculate beta diversity with or without rarefaction?
diversity R
3.8 years ago by dpc ▴ 250
0
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0
replies
991
views
What is the minimum LDA score I can take for LefSe analysis?
sequencing
4.0 years ago by dpc ▴ 250
1
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1
reply
2.7k
views
Comment: C: What is the "Effect Size" in LefSe?
4.0 years ago by dpc ▴ 250
2
votes
3
replies
2.7k
views
What is the "Effect Size" in LefSe?
statistics LefSe
updated 4.0 years ago by ▴ 650 • written 4.1 years ago by ▴ 250
1
vote
1
reply
758
views
Change a column name according to the file name
bash
updated 4.2 years ago by 44k • written 4.2 years ago by ▴ 250
0
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1
reply
2.4k
views
Comment: C: problem in generating correlation heatmap with significance level
4.2 years ago by dpc ▴ 250
3
votes
4
replies
2.4k
views
problem in generating correlation heatmap with significance level
heatmap
updated 4.2 years ago by 88k • written 4.2 years ago by ▴ 250
0
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0
replies
2.1k
views
Comment: C: Can I use pseudocounts for differential abundance of OTUs?
4.2 years ago by dpc ▴ 250
0
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1
reply
3.9k
views
How to show significance value (P value) in heatmap cells generated with pheatmap?
R pheatmap
4.2 years ago by dpc ▴ 250
0
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0
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2.1k
views
Comment: C: Can I use pseudocounts for differential abundance of OTUs?
4.2 years ago by dpc ▴ 250
0
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1
reply
2.1k
views
Comment: C: Can I use pseudocounts for differential abundance of OTUs?
4.2 years ago by dpc ▴ 250
0
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1
reply
4.4k
views
Comment: A: (Cytoscape) How to create a legend for edge width?
4.3 years ago by dpc ▴ 250
0
votes
2
replies
1.4k
views
Cytoscape: how to make some node labels vertical?
cytoscape
updated 4.3 years ago by ▴ 620 • written 4.3 years ago by ▴ 250
0
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0
replies
6.3k
views
Comment: C: Import metaphlan output to phyloseq
4.3 years ago by dpc ▴ 250
2
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1
reply
2.0k
views
How MetaPhlAn calculates relative abundance
wgs metaphlan
updated 4.3 years ago by ▴ 20 • written 4.4 years ago by ▴ 250
0
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1
reply
6.3k
views
Comment: C: Import metaphlan output to phyloseq
4.3 years ago by dpc ▴ 250
0
votes
0
replies
1.1k
views
Can I run LEfSe only with Wilcoxon ranksum but not with kruskal-wallis test?
Lefse
4.4 years ago by dpc ▴ 250
0
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0
replies
9.1k
views
Comment: C: How to make a species co-occurrence network in Cytoscape?
4.4 years ago by dpc ▴ 250
0
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0
replies
4.3k
views
Comment: C: How to change the size of the nodes in Cytoscape according to their relative abu
4.4 years ago by dpc ▴ 250
1
vote
3
replies
4.3k
views
How to change the size of the nodes in Cytoscape according to their relative abundance in co-occurrence network?
cytoscape
updated 4.4 years ago by ▴ 210 • written 4.4 years ago by ▴ 250
0
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2
replies
9.1k
views
Comment: C: How to make a species co-occurrence network in Cytoscape?
4.4 years ago by dpc ▴ 250
0
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1
reply
9.1k
views
Comment: C: How to make a species co-occurrence network in Cytoscape?
4.4 years ago by dpc ▴ 250
0
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3
replies
9.1k
views
Answer: A: How to make a species co-occurrence network in Cytoscape?
4.4 years ago by dpc ▴ 250
6
votes
14
replies
9.1k
views
How to make a species co-occurrence network in Cytoscape?
microbiome
updated 3.1 years ago by • 0 • written 4.4 years ago by ▴ 250
0
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1
reply
9.1k
views
Comment: C: How to make a species co-occurrence network in Cytoscape?
4.4 years ago by dpc ▴ 250
0
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1
reply
9.1k
views
Comment: C: How to make a species co-occurrence network in Cytoscape?
4.4 years ago by dpc ▴ 250
0
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1
reply
8.4k
views
Comment: C: How can I remove the outliers from a boxplot and fill the groups?
4.4 years ago by dpc ▴ 250
7
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10
replies
8.4k
views
How can I remove the outliers from a boxplot and fill the groups?
R statistics
updated 4.4 years ago by 36k • written 4.4 years ago by ▴ 250
0
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1
reply
8.4k
views
Comment: C: How can I remove the outliers from a boxplot and fill the groups?
4.4 years ago by dpc ▴ 250
0
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1
reply
7.3k
views
Comment: C: METAPHLAN: Relative abundance to read count
4.4 years ago by dpc ▴ 250
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