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Showing :
questions
0
votes
0
replies
130
views
How to generate a comparative map using CGview?
genome
map
CGView
11 days ago by
marongiu.luigi
▴ 710
2
votes
6
replies
481
views
How to visualize multiple bacterial genomes with circos?
atlas
genome
visualization
updated 9 weeks ago by
mathavanbioinfo
▴ 80 • written 9 weeks ago by
marongiu.luigi
▴ 710
3
votes
2
replies
265
views
Alternatives to Mummer3 for linux?
alignmemt
sequences
aligner
updated 9 weeks ago by
Dave Carlson
★ 1.7k • written 9 weeks ago by
marongiu.luigi
▴ 710
0
votes
1
reply
226
views
How to annotate phage genomes?
genome
phage
annotation
updated 10 weeks ago by
Ram
43k • written 10 weeks ago by
marongiu.luigi
▴ 710
3
votes
2
replies
367
views
How to run BRIG on Ubuntu 22?
BRIG
Ubuntu
10 weeks ago by
marongiu.luigi
▴ 710
1
vote
7
replies
456
views
How to draw genome atlas on Linux?
atlas
genome
visualization
10 weeks ago by
marongiu.luigi
▴ 710
1
vote
2
replies
248
views
How to add flags to callvariants.sh?
callvariants.sh
bbtools
10 weeks ago by
marongiu.luigi
▴ 710
0
votes
2
replies
379
views
How to launch MAUVE on Ubuntu 22?
mauve
ubuntu
aligner
updated 11 weeks ago by
brian.fristensky
▴ 460 • written 11 weeks ago by
marongiu.luigi
▴ 710
0
votes
0
replies
166
views
How to make block alignment graph with PROGRESSIVE-MAUVE?
mauve
ubuntu
aligner
11 weeks ago by
marongiu.luigi
▴ 710
5
votes
12
replies
1.3k
views
What is the correct procedure to generate a consensus bacterial sequence?
consensus
samtools
illumina
fastq
updated 10 weeks ago by
Brian Bushnell
20k • written 6 months ago by
marongiu.luigi
▴ 710
2
votes
9
replies
928
views
Aligner with statistics included?
aligner
alignment
updated 10 weeks ago by
Brian Bushnell
20k • written 5 months ago by
marongiu.luigi
▴ 710
1
vote
2
replies
540
views
How to properly run prokka on Ubuntu 22?
ubuntu
prokka
updated 5 months ago by
Ram
43k • written 5 months ago by
marongiu.luigi
▴ 710
1
vote
1
reply
322
views
Clustal omega does not align: Killedssive alignment output
sequence-alignment
clustal
updated 5 months ago by
Ram
43k • written 5 months ago by
marongiu.luigi
▴ 710
0
votes
1
reply
369
views
How to generate a consensus sequence from BAM file with bcftools?
bam
bcftools
consensus
updated 6 months ago by
GenoMax
140k • written 6 months ago by
marongiu.luigi
▴ 710
0
votes
0
replies
258
views
How to assemble bacterial genomes accounting for plasmids?
genome
assembly
bacteria
6 months ago by
marongiu.luigi
▴ 710
6
votes
10
replies
1.3k
views
How reliable are WGS results?
WGS
accuracy
quality
reliability
control
19 months ago by
marongiu.luigi
▴ 710
2
votes
9
replies
2.3k
views
Reality check for consensus fasta generated with bcftools
reference-genome
bcftools
assembly
fasta
updated 2.3 years ago by
Ram
43k • written 2.3 years ago by
marongiu.luigi
▴ 710
0
votes
0
replies
792
views
How to use PhageTerm?
genome
assembly
PhageTerm
phage
2.3 years ago by
marongiu.luigi
▴ 710
3
votes
6
replies
1.5k
views
How to collapse de novo contigs into a single sequence?
genome
de
contigs
assembly
spades
bruijn
2.3 years ago by
marongiu.luigi
▴ 710
3
votes
6
replies
1.2k
views
What is the procedure for the assembly of bacteriophage genomes?
genome
methods
phage
assembly
WGS
updated 2.3 years ago by
shenwei356
8.4k • written 2.3 years ago by
marongiu.luigi
▴ 710
2
votes
2
replies
914
views
Where to store large files?
storage
updated 2.5 years ago by
EagleEye
7.5k • written 2.5 years ago by
marongiu.luigi
▴ 710
1
vote
5
replies
2.0k
views
switch off warning in blast command line
efetch
ensembl
warnings
updated 2.9 years ago by
Mensur Dlakic
★ 26k • written 2.9 years ago by
marongiu.luigi
▴ 710
2
votes
4
replies
991
views
What is the resolution of microbial sequence assembly
microbiome
SPAdes
assembly
species
updated 2.9 years ago by
juanjo75es
▴ 130 • written 2.9 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
685
views
Export ensembl efetch in comma-delimited format
format
efetch
ensembl
updated 2.9 years ago by
GenoMax
140k • written 2.9 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
720
views
How to solve Warning: [blastx] Taxonomy name
alignment
blastx
warning
blast
updated 2.9 years ago by
GenoMax
140k • written 2.9 years ago by
marongiu.luigi
▴ 710
0
votes
5
replies
1.7k
views
How to calculate bam coverage apart from Qualimap?
bam
qualimap
coverage
2.9 years ago by
marongiu.luigi
▴ 710
2
votes
1
reply
1.3k
views
Why bamToFastq returns empty fastq files?
bamToFastq
error
bam
fastq
updated 2.9 years ago by
ATpoint
81k • written 2.9 years ago by
marongiu.luigi
▴ 710
1
vote
5
replies
2.4k
views
How to run SPAdes assembler with bam files?
spades
assembler
bam
2.9 years ago by
marongiu.luigi
▴ 710
2
votes
3
replies
1.1k
views
References saying that BWA is not quite specific
bwamem
aligner
3.0 years ago by
marongiu.luigi
▴ 710
1
vote
1
reply
603
views
Reasons for drops in alignment
alignment
quality
updated 3.0 years ago by
German.M.Demidov
★ 2.9k • written 3.0 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
3.2 years ago by
marongiu.luigi
▴ 710
0
votes
0
replies
588
views
How to calculate the occurrence of a stretch of nucleotides in a genome?
genome
3.2 years ago by
marongiu.luigi
▴ 710
2
votes
7
replies
1.7k
views
makeblastdb check for correct formatting
software error
blastdb
sanity check
updated 3.3 years ago by
GenoMax
140k • written 3.3 years ago by
marongiu.luigi
▴ 710
1
vote
2
replies
933
views
How to run Transeq?
software error
use
sequencing
3.4 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
577
views
How to be sure that the microbiome I obtained is sound?
alignment
sequencing
next-gen
assembly
error
updated 2.8 years ago by
Arsenal
▴ 160 • written 3.5 years ago by
marongiu.luigi
▴ 710
0
votes
1
reply
936
views
how to download all reference files with ensembl and taxon ID?
sequence
ensembl
efetch
esearch
3.6 years ago by
marongiu.luigi
▴ 710
1
vote
6
replies
1.1k
views
Can I get a hit by WGS but not by PCR?
sequencing
next-gen
confirmation
PCR
updated 3.7 years ago by
Biostar
20 • written 3.8 years ago by
marongiu.luigi
▴ 710
6
votes
6
replies
8.0k
views
premade BWA hg38 index
genome
Assembly
next-gen
updated 3.7 years ago by
Biostar
20 • written 6.3 years ago by
marongiu.luigi
▴ 710
3
votes
3
replies
2.9k
views
What is the story behind chrEBV?
Assembly
next-gen
genome
3.7 years ago by
marongiu.luigi
▴ 710
3
votes
4
replies
865
views
How to test transposition in BAM files?
Assembly
sequencing
trasnposition
3.8 years ago by
marongiu.luigi
▴ 710
3
votes
4
replies
3.9k
views
sambamba-sort: Error reading BGZF with BAM file
software error
sort
sambamba
updated 3.8 years ago by
ATpoint
81k • written 3.8 years ago by
marongiu.luigi
▴ 710
8
votes
2
replies
829
views
What species are indicators of environmental contamination in metagenomic studies?
WGS
alignment
assembly
RNA-Seq
contamination
updated 3.9 years ago by
colindaven
6.3k • written 3.9 years ago by
marongiu.luigi
▴ 710
2
votes
4
replies
727
views
Is there a model for detection of few reads for low abundance targets?
WGS
alignment
next-gen
sequencing
3.9 years ago by
marongiu.luigi
▴ 710
0
votes
2
replies
1.9k
views
use samtools stats to plot quality of alignment
alignment
quality control
visualization
updated 4.0 years ago by
ATpoint
81k • written 4.0 years ago by
marongiu.luigi
▴ 710
2
votes
2
replies
718
views
Interpretation of sparse reads
assembly
next-gen
interpretation
alignment
updated 4.0 years ago by
colindaven
6.3k • written 4.0 years ago by
marongiu.luigi
▴ 710
3
votes
4
replies
1.3k
views
convert NCBI to GO terms with biomart for r
conversion
ncbi
ensembl
R
biomart
updated 4.0 years ago by
zx8754
11k • written 4.0 years ago by
marongiu.luigi
▴ 710
8
votes
6
replies
4.5k
views
how to unpack sra file?
SRA file
use
unpack
updated 4.1 years ago by
benformatics
3.9k • written 4.1 years ago by
marongiu.luigi
▴ 710
4
votes
2
replies
872
views
How to covert RKPM into absolute quantification?
sequencing
genome
alignment
updated 4.1 years ago by
Kevin Blighe
87k • written 4.1 years ago by
marongiu.luigi
▴ 710
1
vote
1
reply
589
views
Application of empty blast result
blast
filtering
empty
4.1 years ago by
marongiu.luigi
▴ 710
0
votes
10
replies
1.3k
views
BlastX Database: output search is empty
blastx
database
search
error
4.2 years ago by
marongiu.luigi
▴ 710
151 results • Page
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