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0
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0
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411
views
Appropiate normalization method for OTU table built from MAGs abundances estimations?
MAG normalization OTUs metagenomics
3 months ago by v.berriosfarias ▴ 140
0
votes
1
reply
496
views
How to deal with missing annotations in RNASeq data?
eggnogmapper RNASeq
updated 8 months ago by ★ 3.1k • written 8 months ago by ▴ 140
2
votes
2
replies
904
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein FASTA alignment
updated 19 months ago by 45k • written 19 months ago by ▴ 140
1
vote
0
replies
842
views
Comment: Comment: Would you recommend me any tool to assign protein family membership to an aminoa
20 months ago by v.berriosfarias ▴ 140
2
votes
2
replies
842
views
Would you recommend me any tool to assign protein family membership to an aminoacidic fasta file?
protein-annotation fasta
updated 20 months ago by ★ 2.9k • written 21 months ago by ▴ 140
5
votes
3
replies
1.9k
views
What are unbinned contigs ?
binning MAGs metagenomics
updated 2.1 years ago by ★ 30k • written 2.1 years ago by ▴ 140
0
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0
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1.9k
views
Comment: Comment: What are unbinned contigs ?
2.1 years ago by v.berriosfarias ▴ 140
0
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1
reply
984
views
Any idea to plot ANI calculation results ?
genomes ANI FastANI
updated 2.1 years ago by ★ 30k • written 2.1 years ago by ▴ 140
0
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0
replies
473
views
Help on dendrimer building
dendrimer gromacs molecular-dynamics
2.1 years ago by v.berriosfarias ▴ 140
0
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1
reply
1.1k
views
Any tutorial to graph a metabolic pathway from a metabolic model ?
R GEM python gapseq
updated 2.3 years ago by ▴ 50 • written 2.3 years ago by ▴ 140
0
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1
reply
2.9k
views
Comment: Comment: Would you recommend me a binning tool ?
2.3 years ago by v.berriosfarias ▴ 140
2
votes
3
replies
2.9k
views
Would you recommend me a binning tool ?
MAGs metagenomics binning
updated 2.3 years ago by ★ 30k • written 2.3 years ago by ▴ 140
0
votes
1
reply
1.4k
views
How to add a refseq() slot to a MAG based phyloseq object ?
phyloseq fasta R MAG
updated 2.4 years ago by 3.9k • written 2.4 years ago by ▴ 140
0
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0
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3.3k
views
Comment: Comment: Trying to use hmmer to search genes over metagenome assembled genomes
2.4 years ago by v.berriosfarias ▴ 140
4
votes
3
replies
3.3k
views
Trying to use hmmer to search genes over metagenome assembled genomes
MAGs genes hmmer
2.4 years ago by v.berriosfarias ▴ 140
1
vote
1
reply
3.3k
views
Answer: Answer: Trying to use hmmer to search genes over metagenome assembled genomes
2.4 years ago by v.berriosfarias ▴ 140
0
votes
0
replies
1.9k
views
Comment: Comment: featureCounts: ERROR: failed to find the gene identifier attribute
2.5 years ago by v.berriosfarias ▴ 140
2
votes
2
replies
1.9k
views
featureCounts: ERROR: failed to find the gene identifier attribute
gtf featureCounts subread
updated 2.5 years ago by 154k • written 2.5 years ago by ▴ 140
0
votes
0
replies
669
views
Error when converting hmmsearch output to gff file
hmmer2gff gff hmmer
2.5 years ago by v.berriosfarias ▴ 140
1
vote
1
reply
912
views
error when converting hmmer table to off table
hmmer2gff gff hmmer
updated 2.5 years ago by 154k • written 2.5 years ago by ▴ 140
0
votes
0
replies
1.7k
views
Comment: Comment: Any way to retrieve the annotation information of genomes under a bioproject ? (
2.6 years ago by v.berriosfarias ▴ 140
4
votes
3
replies
3.3k
views
How to retrieve fastq files from NCBI using SRA accessions?
SRA fastq-dump
updated 2.6 years ago by 45k • written 3.6 years ago by ▴ 140
2
votes
3
replies
1.7k
views
Any way to retrieve the annotation information of genomes under a bioproject ? (NCBI)
NCBI PGAP Bioproject annotation
2.6 years ago by v.berriosfarias ▴ 140
1
vote
1
reply
806
views
Assembly at lineage level from shotgun data ?
fungus MAGs assembly lineage
2.6 years ago by v.berriosfarias ▴ 140
0
votes
0
replies
2.8k
views
Comment: Comment: how to remove a substring for multiple file names?
2.8 years ago by v.berriosfarias ▴ 140
0
votes
1
reply
1.1k
views
Comment: Comment: trying to look the version of the programs under miniconda3 directory
2.8 years ago by v.berriosfarias ▴ 140
1
vote
4
replies
1.1k
views
trying to look the version of the programs under miniconda3 directory
miniconda3 versions
updated 2.8 years ago by 90k • written 2.8 years ago by ▴ 140
1
vote
0
replies
931
views
Calculating read abundances across MAGs (question)
abundance Metagenomics paired-reads
2.8 years ago by v.berriosfarias ▴ 140
0
votes
2
replies
7.8k
views
OpenBLAS Warning : Detect OpenMP Loop and this application may hang. Please rebuild the library with USE_OPENMP=1 option
metawrap concoct conda openblas
updated 2.9 years ago by ▴ 60 • written 4.6 years ago by ▴ 140
0
votes
0
replies
551
views
Problem with Autometa binning tool
autometa
3.1 years ago by v.berriosfarias ▴ 140
2
votes
2
replies
2.0k
views
megahit error exit code 6
megahit
updated 3.1 years ago by ★ 30k • written 3.1 years ago by ▴ 140
9
votes
6
replies
6.4k
views
How to cat 2 paired end reads files together in one file using loops for multiple libraries ?
paired-end-reads cat loops bash
updated 3.1 years ago by ▴ 20 • written 4.5 years ago by ▴ 140
2
votes
0
replies
4.1k
views
Answer: Answer: Antismash on Fasta files
3.1 years ago by v.berriosfarias ▴ 140
4
votes
6
replies
2.8k
views
Does ASVs IDs from dada2 have specific taxonomic assignments?
dada2 R ASVs
updated 2.1 years ago by 3.9k • written 3.2 years ago by ▴ 140
0
votes
1
reply
2.8k
views
Comment: Comment: Does ASVs IDs from dada2 have specific taxonomic assignments?
3.2 years ago by v.berriosfarias ▴ 140
0
votes
0
replies
2.9k
views
Comment: Comment: Has anybody managed to install and run GroopM lately?
3.2 years ago by v.berriosfarias ▴ 140
2
votes
3
replies
2.9k
views
Answer: Answer: Has anybody managed to install and run GroopM lately?
3.2 years ago by v.berriosfarias ▴ 140
0
votes
0
replies
603
views
any way to merge functions of kegg orthologs database?
functional-profile metagenomics data-wrangling
3.3 years ago by v.berriosfarias ▴ 140
2
votes
1
reply
2.4k
views
How to import conda environments to Rstudio?
Estudio conda
updated 3.3 years ago by 5.2k • written 3.3 years ago by ▴ 140
0
votes
0
replies
654
views
Is it normal that my amplicon sequence variants (ASVs) have gaps ?
ASVs DADA2 fasta
3.4 years ago by v.berriosfarias ▴ 140
0
votes
3
replies
1.4k
views
How to add taxonomic information to fasta headers
MAGs taxonomy fasta
updated 3.4 years ago by 22k • written 3.4 years ago by ▴ 140
0
votes
0
replies
1.7k
views
Comment: Comment: How to remove [ACTG] from file names in bash
3.4 years ago by v.berriosfarias ▴ 140
3
votes
5
replies
1.7k
views
How to remove [ACTG] from file names in bash
bash substring
updated 3.4 years ago by 21k • written 3.4 years ago by ▴ 140
2
votes
3
replies
1.3k
views
any tool for searching duplicated or redundant sequences in a database?
fasta database
updated 3.4 years ago by ▴ 400 • written 3.5 years ago by ▴ 140
0
votes
0
replies
545
views
problem with gene abundance calculation
bam gtf bash R GFF
3.4 years ago by v.berriosfarias ▴ 140
0
votes
0
replies
1.3k
views
Comment: Comment: Problem when converting from blast output table to GTF file.
3.4 years ago by v.berriosfarias ▴ 140
3
votes
2
replies
1.3k
views
Problem when converting from blast output table to GTF file.
gene GTF GFF
updated 3.4 years ago by 9.3k • written 3.4 years ago by ▴ 140
0
votes
1
reply
1.5k
views
How to normalize gene abundance from metagenomic data?
gene-abundance normalization R metagenomics
updated 3.4 years ago by 10k • written 3.4 years ago by ▴ 140
3
votes
4
replies
1.3k
views
Struggling with some data visualization in R
ggplot2 visualization R
updated 3.4 years ago by 11k • written 3.4 years ago by ▴ 140
0
votes
0
replies
1.8k
views
Comment: Comment: gene abundance profiling from metagenomes
3.5 years ago by v.berriosfarias ▴ 140
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