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0
votes
1
reply
877
views
Comment:
Comment: How to rearrange fasta headers
23 months ago by
v.berriosfarias
▴ 140
2
votes
4
replies
877
views
How to rearrange fasta headers
fasta
R
bash
string
updated 23 months ago by
cpad0112
21k • written 23 months ago by
v.berriosfarias
▴ 140
0
votes
0
replies
560
views
MMseqs2 with paired end reads?
protein-profiling
mmseqs2
23 months ago by
v.berriosfarias
▴ 140
0
votes
0
replies
982
views
Comment:
Comment: retrieving paired end sequencing data with fasts-dump
23 months ago by
v.berriosfarias
▴ 140
0
votes
0
replies
982
views
Comment:
Comment: retrieving paired end sequencing data with fasts-dump
23 months ago by
v.berriosfarias
▴ 140
3
votes
5
replies
982
views
retrieving paired end sequencing data with fasts-dump
NCBI
fastq
sra-toolkit
updated 23 months ago by
Istvan Albert
100k • written 23 months ago by
v.berriosfarias
▴ 140
0
votes
0
replies
334
views
How to perform a biplot having a genomic distance matrix and environmental metadata
PCoA
ampvis2
R
biplot
vegan
24 months ago by
v.berriosfarias
▴ 140
0
votes
0
replies
1.4k
views
Comment:
Comment: how to create a custom database (GTDB) ?
2.1 years ago by
v.berriosfarias
▴ 140
3
votes
3
replies
1.0k
views
retrieveing gene list from NCBI
NCBI
gene
perl
updated 2.3 years ago by
GenoMax
141k • written 2.3 years ago by
v.berriosfarias
▴ 140
2
votes
3
replies
3.4k
views
Could NOT find ZLIB while running cmake
zlib
cmake
conda
racon
updated 2.3 years ago by
Sam
★ 4.7k • written 2.3 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
487
views
Pacbio and illumina assembly question
Pacbio
assembly
racon
illumina
2.3 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
1.4k
views
Comment:
Comment: How to add taxonomic information for each fasta header ?
updated 2.3 years ago by
shenwei356
8.4k • written 2.3 years ago by
v.berriosfarias
▴ 140
2
votes
4
replies
1.4k
views
How to add taxonomic information for each fasta header ?
awk
taxonomy
FASTA
updated 2.3 years ago by
shenwei356
8.4k • written 2.3 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
3.6k
views
Comment:
Comment: Difference between a bin and a MAG
2.3 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
3.6k
views
Comment:
Comment: Difference between a bin and a MAG
2.3 years ago by
v.berriosfarias
▴ 140
1
vote
2
replies
1.4k
views
how to create a custom database (GTDB) ?
MAGs
GTDB
databases
2.1 years ago by
v.berriosfarias
▴ 140
1
vote
1
reply
691
views
How to retrieve all the nucleotide sequences in fasta format of all 'nucleotide' hyperlinks from a specie accesion from NCBI?
ncbi
fasta
updated 2.4 years ago by
GenoMax
141k • written 2.4 years ago by
v.berriosfarias
▴ 140
1
vote
3
replies
2.0k
views
which sequence adapter trimming tool should i use for my illumina 101pb reads ?
cutadapt
alignment
seed
illumina
updated 2.5 years ago by
Jiacheng
▴ 60 • written 3.4 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
1.7k
views
Comment:
Comment: parsing gbk files (antismash result)
2.6 years ago by
v.berriosfarias
▴ 140
1
vote
2
replies
1.7k
views
parsing gbk files (antismash result)
awk
biopython
gbk
antismash
bash
2.6 years ago by
v.berriosfarias
▴ 140
5
votes
5
replies
1.6k
views
how to remove a substring for multiple file names?
string
bash
14 months ago by
v.berriosfarias
▴ 140
0
votes
0
replies
1.6k
views
Comment:
Comment: how to remove a substring for multiple file names?
2.8 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
2.5k
views
Comment:
Comment: distance matrix as input in R clustering functions ?
2.8 years ago by
v.berriosfarias
▴ 140
1
vote
2
replies
621
views
is there a proper way to choose clusters in hierarchical clustering?
Hierarchical-clustering
dendogram
R
updated 2.8 years ago by
Hamid Ghaedi
3.2k • written 2.8 years ago by
v.berriosfarias
▴ 140
5
votes
4
replies
2.5k
views
distance matrix as input in R clustering functions ?
k-medioids-genetic-distances-mash
R
Clustering
updated 2.8 years ago by
Jean-Karim Heriche
27k • written 2.8 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
752
views
Comment:
Comment: Viral taxonomic classification question
2.8 years ago by
v.berriosfarias
▴ 140
0
votes
2
replies
752
views
Viral taxonomic classification question
taxonomic-classification
viral-metagenomics
2.8 years ago by
v.berriosfarias
▴ 140
4
votes
1
reply
562
views
Does anyone know if there is an implementation of overlaping kmeans algorithm in R ?
r
partitional-clustering
kmeans
updated 2.9 years ago by
Mensur Dlakic
★ 27k • written 2.9 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
538
views
how to import multiple fastq files from NCBI without using fastq-dump?
curl
wget
multi-samples
importing
updated 2.9 years ago by
GenoMax
141k • written 2.9 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
4.0k
views
Comment:
Comment: How to cat 2 paired end reads files together in one file using loops for multip
2.9 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
4.0k
views
Comment:
Comment: How to cat 2 paired end reads files together in one file using loops for multip
2.9 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
1.3k
views
Maxbin2 usage for paired end reads
binning
paired-end-reads
updated 2.8 years ago by
serene.s
• 0 • written 3.0 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
469
views
should I scale a MASH matrix ?
scale
MASH
3.0 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
1.3k
views
Comment:
Comment: making a PCA from MASH distance result
3.0 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
11k
views
Comment:
Comment: Installing perl modules on a conda environment produce changes out of the enviro
3.0 years ago by
v.berriosfarias
▴ 140
9
votes
4
replies
11k
views
Installing perl modules on a conda environment produce changes out of the environment?
conda
perl
updated 3.0 years ago by
Philipp Bayer
8.3k • written 3.0 years ago by
v.berriosfarias
▴ 140
2
votes
2
replies
1.3k
views
making a PCA from MASH distance result
MASH
R
PCA
3.0 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
1.6k
views
Comment:
Comment: Tools for hard trimming?
3.0 years ago by
v.berriosfarias
▴ 140
1
vote
2
replies
1.2k
views
multiqc report, should I care for "Per Base Sequence Content" module if using metagenomic datasets?
fastqc
multiqc
updated 3.0 years ago by
Ram
43k • written 3.0 years ago by
v.berriosfarias
▴ 140
0
votes
2
replies
3.1k
views
Comment:
Comment: How to extract sequences from fasta that have a certain length ?
3.0 years ago by
v.berriosfarias
▴ 140
2
votes
4
replies
3.1k
views
How to extract sequences from fasta that have a certain length ?
minlength
fasta
updated 3.0 years ago by
shenwei356
8.4k • written 3.0 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
1.4k
views
Comment:
Comment: BAM file's reference sequence IDs doesnt match contigs ID's
3.0 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
1.4k
views
Comment:
Comment: BAM file's reference sequence IDs doesnt match contigs ID's
3.0 years ago by
v.berriosfarias
▴ 140
1
vote
4
replies
1.4k
views
BAM file's reference sequence IDs doesnt match contigs ID's
metagenomics
alignment
bam
updated 13 months ago by
Ram
43k • written 3.0 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
1.3k
views
Comment:
Comment: K-mer usage in metagenome assemblies
3.0 years ago by
v.berriosfarias
▴ 140
4
votes
3
replies
1.3k
views
K-mer usage in metagenome assemblies
Assembly
metagenomics
k-mer
3.0 years ago by
v.berriosfarias
▴ 140
0
votes
2
replies
1.5k
views
Comment:
C: Filter contigs by size: Different output between quast report and python output
3.1 years ago by
v.berriosfarias
▴ 140
0
votes
1
reply
1.5k
views
Comment:
C: Filter contigs by size: Different output between quast report and python output
3.1 years ago by
v.berriosfarias
▴ 140
1
vote
1
reply
873
views
On read sequencing libraries, the opposite strands are considered on the files? (and how are they handled on assembly?)
reads
sequencing
Assembly
3.2 years ago by
v.berriosfarias
▴ 140
1
vote
1
reply
1.1k
views
fastp issue (trimming and read filtering tool)
fastp
trimming
adapter
3.2 years ago by
v.berriosfarias
▴ 140
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