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Showing :
questions
0
votes
2
replies
259
views
How to detect and visualize ORFs in bacterial genome?
statistics
visualization
ORFs
genome
5 weeks ago by
marongiu.luigi
▴ 710
0
votes
6
replies
518
views
Error in running Mauve alignner in Ubuntu 20.04
java
linux
aligner
mauve
5 weeks ago by
marongiu.luigi
▴ 710
3
votes
3
replies
573
views
How to run BRIG on Ubuntu 22?
BRIG
Ubuntu
updated 6 weeks ago by
Reno
• 0 • written 4 months ago by
marongiu.luigi
▴ 710
0
votes
5
replies
543
views
How to assure that sequence consensus is genuine?
genome
6 weeks ago by
marongiu.luigi
▴ 710
0
votes
0
replies
161
views
How to generate a comparative map using CGview?
genome
map
CGView
9 weeks ago by
marongiu.luigi
▴ 710
2
votes
6
replies
638
views
How to visualize multiple bacterial genomes with circos?
atlas
genome
visualization
updated 3 months ago by
mathavanbioinfo
▴ 90 • written 3 months ago by
marongiu.luigi
▴ 710
3
votes
2
replies
307
views
Alternatives to Mummer3 for linux?
alignmemt
sequences
aligner
updated 3 months ago by
Dave Carlson
★ 1.7k • written 3 months ago by
marongiu.luigi
▴ 710
0
votes
1
reply
296
views
How to annotate phage genomes?
genome
phage
annotation
updated 4 months ago by
Ram
43k • written 4 months ago by
marongiu.luigi
▴ 710
1
vote
7
replies
598
views
How to draw genome atlas on Linux?
atlas
genome
visualization
4 months ago by
marongiu.luigi
▴ 710
1
vote
2
replies
292
views
How to add flags to callvariants.sh?
callvariants.sh
bbtools
4 months ago by
marongiu.luigi
▴ 710
0
votes
2
replies
486
views
How to launch MAUVE on Ubuntu 22?
mauve
ubuntu
aligner
updated 4 months ago by
brian.fristensky
▴ 460 • written 4 months ago by
marongiu.luigi
▴ 710
0
votes
0
replies
195
views
How to make block alignment graph with PROGRESSIVE-MAUVE?
mauve
ubuntu
aligner
4 months ago by
marongiu.luigi
▴ 710
5
votes
12
replies
1.6k
views
What is the correct procedure to generate a consensus bacterial sequence?
consensus
samtools
illumina
fastq
updated 4 months ago by
Brian Bushnell
20k • written 7 months ago by
marongiu.luigi
▴ 710
2
votes
9
replies
1.1k
views
Aligner with statistics included?
aligner
alignment
updated 4 months ago by
Brian Bushnell
20k • written 7 months ago by
marongiu.luigi
▴ 710
1
vote
2
replies
665
views
How to properly run prokka on Ubuntu 22?
ubuntu
prokka
updated 7 months ago by
Ram
43k • written 7 months ago by
marongiu.luigi
▴ 710
1
vote
1
reply
376
views
Clustal omega does not align: Killedssive alignment output
sequence-alignment
clustal
updated 7 months ago by
Ram
43k • written 7 months ago by
marongiu.luigi
▴ 710
0
votes
1
reply
411
views
How to generate a consensus sequence from BAM file with bcftools?
bam
bcftools
consensus
updated 8 months ago by
GenoMax
142k • written 8 months ago by
marongiu.luigi
▴ 710
0
votes
0
replies
289
views
How to assemble bacterial genomes accounting for plasmids?
genome
assembly
bacteria
8 months ago by
marongiu.luigi
▴ 710
6
votes
10
replies
1.5k
views
How reliable are WGS results?
WGS
accuracy
quality
reliability
control
21 months ago by
marongiu.luigi
▴ 710
2
votes
9
replies
2.5k
views
Reality check for consensus fasta generated with bcftools
reference-genome
bcftools
assembly
fasta
updated 2.4 years ago by
Ram
43k • written 2.4 years ago by
marongiu.luigi
▴ 710
0
votes
0
replies
834
views
How to use PhageTerm?
genome
assembly
PhageTerm
phage
2.4 years ago by
marongiu.luigi
▴ 710
3
votes
6
replies
1.7k
views
How to collapse de novo contigs into a single sequence?
genome
de
contigs
assembly
spades
bruijn
2.4 years ago by
marongiu.luigi
▴ 710
3
votes
6
replies
1.3k
views
What is the procedure for the assembly of bacteriophage genomes?
genome
methods
phage
assembly
WGS
updated 2.4 years ago by
shenwei356
8.5k • written 2.4 years ago by
marongiu.luigi
▴ 710
2
votes
2
replies
957
views
Where to store large files?
storage
updated 2.6 years ago by
EagleEye
7.5k • written 2.6 years ago by
marongiu.luigi
▴ 710
2
votes
5
replies
2.1k
views
switch off warning in blast command line
efetch
ensembl
warnings
updated 3.0 years ago by
Mensur Dlakic
★ 27k • written 3.0 years ago by
marongiu.luigi
▴ 710
2
votes
4
replies
1.0k
views
What is the resolution of microbial sequence assembly
microbiome
SPAdes
assembly
species
updated 3.0 years ago by
juanjo75es
▴ 130 • written 3.0 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
715
views
Export ensembl efetch in comma-delimited format
format
efetch
ensembl
updated 3.0 years ago by
GenoMax
142k • written 3.0 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
771
views
How to solve Warning: [blastx] Taxonomy name
alignment
blastx
warning
blast
updated 3.1 years ago by
GenoMax
142k • written 3.1 years ago by
marongiu.luigi
▴ 710
0
votes
5
replies
1.8k
views
How to calculate bam coverage apart from Qualimap?
bam
qualimap
coverage
3.1 years ago by
marongiu.luigi
▴ 710
2
votes
1
reply
1.4k
views
Why bamToFastq returns empty fastq files?
bamToFastq
error
bam
fastq
updated 3.1 years ago by
ATpoint
82k • written 3.1 years ago by
marongiu.luigi
▴ 710
1
vote
5
replies
2.6k
views
How to run SPAdes assembler with bam files?
spades
assembler
bam
3.1 years ago by
marongiu.luigi
▴ 710
2
votes
3
replies
1.1k
views
References saying that BWA is not quite specific
bwamem
aligner
3.1 years ago by
marongiu.luigi
▴ 710
1
vote
1
reply
633
views
Reasons for drops in alignment
alignment
quality
updated 3.1 years ago by
German.M.Demidov
★ 2.9k • written 3.1 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
1.6k
views
Error in extracting SRA file: symbol lookup error
software error
next-gen
sequence
3.3 years ago by
marongiu.luigi
▴ 710
0
votes
0
replies
608
views
How to calculate the occurrence of a stretch of nucleotides in a genome?
genome
3.4 years ago by
marongiu.luigi
▴ 710
2
votes
7
replies
1.8k
views
makeblastdb check for correct formatting
software error
blastdb
sanity check
updated 3.4 years ago by
GenoMax
142k • written 3.4 years ago by
marongiu.luigi
▴ 710
1
vote
2
replies
974
views
How to run Transeq?
software error
use
sequencing
3.6 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
606
views
How to be sure that the microbiome I obtained is sound?
alignment
sequencing
next-gen
assembly
error
updated 3.0 years ago by
Arsenal
▴ 160 • written 3.7 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
965
views
how to download all reference files with ensembl and taxon ID?
sequence
ensembl
efetch
esearch
3.7 years ago by
marongiu.luigi
▴ 710
1
vote
6
replies
1.2k
views
Can I get a hit by WGS but not by PCR?
sequencing
next-gen
confirmation
PCR
updated 3.8 years ago by
Biostar
20 • written 3.9 years ago by
marongiu.luigi
▴ 710
6
votes
6
replies
8.2k
views
premade BWA hg38 index
genome
Assembly
next-gen
updated 3.9 years ago by
Biostar
20 • written 6.4 years ago by
marongiu.luigi
▴ 710
3
votes
3
replies
3.0k
views
What is the story behind chrEBV?
Assembly
next-gen
genome
3.9 years ago by
marongiu.luigi
▴ 710
3
votes
4
replies
908
views
How to test transposition in BAM files?
Assembly
sequencing
trasnposition
4.0 years ago by
marongiu.luigi
▴ 710
3
votes
4
replies
4.1k
views
sambamba-sort: Error reading BGZF with BAM file
software error
sort
sambamba
updated 4.0 years ago by
ATpoint
82k • written 4.0 years ago by
marongiu.luigi
▴ 710
8
votes
2
replies
867
views
What species are indicators of environmental contamination in metagenomic studies?
WGS
alignment
assembly
RNA-Seq
contamination
updated 4.1 years ago by
colindaven
6.4k • written 4.1 years ago by
marongiu.luigi
▴ 710
2
votes
4
replies
766
views
Is there a model for detection of few reads for low abundance targets?
WGS
alignment
next-gen
sequencing
4.1 years ago by
marongiu.luigi
▴ 710
0
votes
2
replies
2.0k
views
use samtools stats to plot quality of alignment
alignment
quality control
visualization
updated 4.1 years ago by
ATpoint
82k • written 4.1 years ago by
marongiu.luigi
▴ 710
2
votes
2
replies
753
views
Interpretation of sparse reads
assembly
next-gen
interpretation
alignment
updated 4.1 years ago by
colindaven
6.4k • written 4.1 years ago by
marongiu.luigi
▴ 710
3
votes
4
replies
1.4k
views
convert NCBI to GO terms with biomart for r
conversion
ncbi
ensembl
R
biomart
updated 4.2 years ago by
zx8754
11k • written 4.2 years ago by
marongiu.luigi
▴ 710
8
votes
6
replies
4.8k
views
how to unpack sra file?
SRA file
use
unpack
updated 4.2 years ago by
benformatics
3.9k • written 4.2 years ago by
marongiu.luigi
▴ 710
154 results • Page
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