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comments
0
votes
0
replies
187
views
Comment:
Comment: How to remove [ACTG] from file names in bash
2 days ago by
v.berriosfarias
▴ 50
2
votes
5
replies
187
views
How to remove [ACTG] from file names in bash
bash
substring
updated 1 day ago by
cpad0112
21k • written 2 days ago by
v.berriosfarias
▴ 50
2
votes
3
replies
231
views
any tool for searching duplicated or redundant sequences in a database?
fasta
database
updated 10 days ago by
Hugo
▴ 360 • written 8 weeks ago by
v.berriosfarias
▴ 50
0
votes
0
replies
81
views
problem with gene abundance calculation
bam
gtf
bash
R
GFF
15 days ago by
v.berriosfarias
▴ 50
0
votes
0
replies
139
views
Comment:
Comment: Problem when converting from blast output table to GTF file.
17 days ago by
v.berriosfarias
▴ 50
3
votes
2
replies
139
views
Problem when converting from blast output table to GTF file.
gene
GTF
GFF
updated 16 days ago by
Juke34
★ 7.1k • written 17 days ago by
v.berriosfarias
▴ 50
0
votes
1
reply
155
views
How to normalize gene abundance from metagenomic data?
gene-abundance
normalization
R
metagenomics
updated 18 days ago by
Asaf
8.9k • written 18 days ago by
v.berriosfarias
▴ 50
3
votes
4
replies
319
views
Struggling with some data visualization in R
ggplot2
visualization
R
updated 24 days ago by
seidel
9.5k • written 24 days ago by
v.berriosfarias
▴ 50
0
votes
0
replies
231
views
Comment:
Comment: gene abundance profiling from metagenomes
26 days ago by
v.berriosfarias
▴ 50
1
vote
2
replies
231
views
gene abundance profiling from metagenomes
gene-abundance
mapping
metagenomics
26 days ago by
v.berriosfarias
▴ 50
0
votes
1
reply
190
views
GRanges strand identification
GRanges
R
bam
updated 29 days ago by
benformatics
★ 2.9k • written 29 days ago by
v.berriosfarias
▴ 50
1
vote
1
reply
212
views
statistical question (different number of gene orthologs on database)
database
statistics
updated 5 weeks ago by
Asaf
8.9k • written 6 weeks ago by
v.berriosfarias
▴ 50
0
votes
1
reply
269
views
Comment:
Comment: How to rearrange fasta headers
6 weeks ago by
v.berriosfarias
▴ 50
2
votes
4
replies
269
views
How to rearrange fasta headers
fasta
R
bash
string
updated 6 weeks ago by
cpad0112
21k • written 6 weeks ago by
v.berriosfarias
▴ 50
0
votes
0
replies
98
views
MMseqs2 with paired end reads?
protein-profiling
mmseqs2
7 weeks ago by
v.berriosfarias
▴ 50
0
votes
0
replies
395
views
Comment:
Comment: retrieving paired end sequencing data with fasts-dump
8 weeks ago by
v.berriosfarias
▴ 50
0
votes
0
replies
395
views
Comment:
Comment: retrieving paired end sequencing data with fasts-dump
8 weeks ago by
v.berriosfarias
▴ 50
3
votes
5
replies
395
views
retrieving paired end sequencing data with fasts-dump
NCBI
fastq
sra-toolkit
updated 8 weeks ago by
Istvan Albert
93k • written 8 weeks ago by
v.berriosfarias
▴ 50
0
votes
0
replies
91
views
How to perform a biplot having a genomic distance matrix and environmental metadata
PCoA
ampvis2
R
biplot
vegan
10 weeks ago by
v.berriosfarias
▴ 50
1
vote
1
reply
171
views
How to retrieve fastq files from NCBI using SRA accessions?
SRA
fastq-dump
updated 10 weeks ago by
GenoMax
117k • written 10 weeks ago by
v.berriosfarias
▴ 50
0
votes
0
replies
420
views
Comment:
Comment: how to create a custom database (GTDB) ?
3 months ago by
v.berriosfarias
▴ 50
3
votes
3
replies
423
views
retrieveing gene list from NCBI
NCBI
gene
perl
updated 6 months ago by
GenoMax
117k • written 6 months ago by
v.berriosfarias
▴ 50
2
votes
3
replies
1.2k
views
Could NOT find ZLIB while running cmake
zlib
cmake
conda
racon
updated 6 months ago by
Sam
★ 4.4k • written 6 months ago by
v.berriosfarias
▴ 50
0
votes
0
replies
189
views
Pacbio and illumina assembly question
Pacbio
assembly
racon
illumina
6 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
546
views
Comment:
Comment: How to add taxonomic information for each fasta header ?
updated 6 months ago by
shenwei356
7.3k • written 6 months ago by
v.berriosfarias
▴ 50
2
votes
4
replies
546
views
How to add taxonomic information for each fasta header ?
awk
taxonomy
FASTA
updated 6 months ago by
shenwei356
7.3k • written 6 months ago by
v.berriosfarias
▴ 50
0
votes
0
replies
1.6k
views
Comment:
Comment: Difference between a bin and a MAG
6 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
1.6k
views
Comment:
Comment: Difference between a bin and a MAG
6 months ago by
v.berriosfarias
▴ 50
1
vote
2
replies
420
views
how to create a custom database (GTDB) ?
MAGs
GTDB
databases
3 months ago by
v.berriosfarias
▴ 50
1
vote
1
reply
390
views
How to retrieve all the nucleotide sequences in fasta format of all 'nucleotide' hyperlinks from a specie accesion from NCBI?
ncbi
fasta
updated 7 months ago by
GenoMax
117k • written 7 months ago by
v.berriosfarias
▴ 50
1
vote
3
replies
1.2k
views
which sequence adapter trimming tool should i use for my illumina 101pb reads ?
cutadapt
alignment
seed
illumina
updated 8 months ago by
Jiacheng
▴ 30 • written 19 months ago by
v.berriosfarias
▴ 50
0
votes
0
replies
620
views
Comment:
Comment: parsing gbk files (antismash result)
10 months ago by
v.berriosfarias
▴ 50
1
vote
2
replies
620
views
parsing gbk files (antismash result)
awk
biopython
gbk
antismash
bash
10 months ago by
v.berriosfarias
▴ 50
3
votes
4
replies
518
views
how to remove a substring for multiple file names?
string
bash
updated 11 months ago by
cpad0112
21k • written 11 months ago by
v.berriosfarias
▴ 50
0
votes
0
replies
518
views
Comment:
Comment: how to remove a substring for multiple file names?
11 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
1.0k
views
Comment:
Comment: distance matrix as input in R clustering functions ?
12 months ago by
v.berriosfarias
▴ 50
1
vote
2
replies
334
views
is there a proper way to choose clusters in hierarchical clustering?
Hierarchical-clustering
dendogram
R
updated 12 months ago by
Hamid Ghaedi
★ 2.5k • written 12 months ago by
v.berriosfarias
▴ 50
4
votes
4
replies
1.0k
views
distance matrix as input in R clustering functions ?
k-medioids-genetic-distances-mash
R
Clustering
updated 12 months ago by
Jean-Karim Heriche
25k • written 12 months ago by
v.berriosfarias
▴ 50
0
votes
0
replies
351
views
Comment:
Comment: Viral taxonomic classification question
12 months ago by
v.berriosfarias
▴ 50
0
votes
2
replies
351
views
Viral taxonomic classification question
taxonomic-classification
viral-metagenomics
12 months ago by
v.berriosfarias
▴ 50
4
votes
1
reply
315
views
Does anyone know if there is an implementation of overlaping kmeans algorithm in R ?
r
partitional-clustering
kmeans
updated 12 months ago by
Mensur Dlakic
★ 20k • written 12 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
311
views
how to import multiple fastq files from NCBI without using fastq-dump?
curl
wget
multi-samples
importing
updated 13 months ago by
GenoMax
117k • written 13 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
1.2k
views
Comment:
Comment: How to cat 2 paired end reads files together in one file using loops for multip
13 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
1.2k
views
Comment:
Comment: How to cat 2 paired end reads files together in one file using loops for multip
13 months ago by
v.berriosfarias
▴ 50
4
votes
5
replies
1.2k
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 13 months ago by
ATpoint
62k • written 13 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
2.5k
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 14 months ago by
Mensur Dlakic
★ 20k • written 14 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
653
views
Maxbin2 usage for paired end reads
binning
paired-end-reads
updated 12 months ago by
serene.s
• 0 • written 14 months ago by
v.berriosfarias
▴ 50
0
votes
0
replies
248
views
should I scale a MASH matrix ?
scale
MASH
14 months ago by
v.berriosfarias
▴ 50
0
votes
0
replies
647
views
Comment:
Comment: making a PCA from MASH distance result
14 months ago by
v.berriosfarias
▴ 50
0
votes
1
reply
4.7k
views
Comment:
Comment: Installing perl modules on a conda environment produce changes out of the enviro
14 months ago by
v.berriosfarias
▴ 50
82 results • Page
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