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0
votes
2
replies
230
views
How to detect and visualize ORFs in bacterial genome?
statistics visualization ORFs genome
18 days ago by marongiu.luigi ▴ 710
0
votes
6
replies
475
views
Error in running Mauve alignner in Ubuntu 20.04
java linux aligner mauve
21 days ago by marongiu.luigi ▴ 710
3
votes
3
replies
532
views
How to run BRIG on Ubuntu 22?
BRIG Ubuntu
updated 27 days ago by • 0 • written 3 months ago by ▴ 710
0
votes
5
replies
501
views
How to assure that sequence consensus is genuine?
genome
24 days ago by marongiu.luigi ▴ 710
0
votes
0
replies
151
views
How to generate a comparative map using CGview?
genome map CGView
6 weeks ago by marongiu.luigi ▴ 710
2
votes
6
replies
576
views
How to visualize multiple bacterial genomes with circos?
atlas genome visualization
updated 3 months ago by ▴ 90 • written 3 months ago by ▴ 710
3
votes
2
replies
289
views
Alternatives to Mummer3 for linux?
alignmemt sequences aligner
updated 3 months ago by ★ 1.7k • written 3 months ago by ▴ 710
0
votes
1
reply
270
views
How to annotate phage genomes?
genome phage annotation
updated 3 months ago by 43k • written 3 months ago by ▴ 710
1
vote
7
replies
535
views
How to draw genome atlas on Linux?
atlas genome visualization
3 months ago by marongiu.luigi ▴ 710
1
vote
2
replies
281
views
How to add flags to callvariants.sh?
callvariants.sh bbtools
3 months ago by marongiu.luigi ▴ 710
0
votes
2
replies
436
views
How to launch MAUVE on Ubuntu 22?
mauve ubuntu aligner
updated 3 months ago by ▴ 460 • written 3 months ago by ▴ 710
0
votes
0
replies
182
views
How to make block alignment graph with PROGRESSIVE-MAUVE?
mauve ubuntu aligner
3 months ago by marongiu.luigi ▴ 710
5
votes
12
replies
1.5k
views
What is the correct procedure to generate a consensus bacterial sequence?
consensus samtools illumina fastq
updated 3 months ago by 20k • written 7 months ago by ▴ 710
2
votes
9
replies
1.0k
views
Aligner with statistics included?
aligner alignment
updated 3 months ago by 20k • written 6 months ago by ▴ 710
1
vote
2
replies
599
views
How to properly run prokka on Ubuntu 22?
ubuntu prokka
updated 6 months ago by 43k • written 6 months ago by ▴ 710
1
vote
1
reply
361
views
Clustal omega does not align: Killedssive alignment output
sequence-alignment clustal
updated 6 months ago by 43k • written 6 months ago by ▴ 710
0
votes
1
reply
394
views
How to generate a consensus sequence from BAM file with bcftools?
bam bcftools consensus
updated 7 months ago by 141k • written 7 months ago by ▴ 710
0
votes
0
replies
280
views
How to assemble bacterial genomes accounting for plasmids?
genome assembly bacteria
7 months ago by marongiu.luigi ▴ 710
6
votes
10
replies
1.4k
views
How reliable are WGS results?
WGS accuracy quality reliability control
20 months ago by marongiu.luigi ▴ 710
2
votes
9
replies
2.4k
views
Reality check for consensus fasta generated with bcftools
reference-genome bcftools assembly fasta
updated 2.4 years ago by 43k • written 2.4 years ago by ▴ 710
0
votes
0
replies
823
views
How to use PhageTerm?
genome assembly PhageTerm phage
2.4 years ago by marongiu.luigi ▴ 710
3
votes
6
replies
1.6k
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 8.4k • written 2.4 years ago by ▴ 710
2
votes
2
replies
941
views
Where to store large files?
storage
updated 2.6 years ago by 7.5k • written 2.6 years ago by ▴ 710
1
vote
5
replies
2.0k
views
switch off warning in blast command line
efetch ensembl warnings
updated 3.0 years ago by ★ 27k • written 3.0 years ago by ▴ 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 ▴ 130 • written 3.0 years ago by ▴ 710
0
votes
1
reply
707
views
Export ensembl efetch in comma-delimited format
format efetch ensembl
updated 3.0 years ago by 141k • written 3.0 years ago by ▴ 710
0
votes
1
reply
760
views
How to solve Warning: [blastx] Taxonomy name
alignment blastx warning blast
updated 3.0 years ago by 141k • written 3.0 years ago by ▴ 710
0
votes
5
replies
1.7k
views
How to calculate bam coverage apart from Qualimap?
bam qualimap coverage
3.0 years ago by marongiu.luigi ▴ 710
2
votes
1
reply
1.4k
views
Why bamToFastq returns empty fastq files?
bamToFastq error bam fastq
updated 3.0 years ago by 82k • written 3.0 years ago by ▴ 710
1
vote
5
replies
2.5k
views
How to run SPAdes assembler with bam files?
spades assembler bam
3.0 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
626
views
Reasons for drops in alignment
alignment quality
updated 3.1 years ago by ★ 2.9k • written 3.1 years ago by ▴ 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
600
views
How to calculate the occurrence of a stretch of nucleotides in a genome?
genome
3.3 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 141k • written 3.4 years ago by ▴ 710
1
vote
2
replies
961
views
How to run Transeq?
software error use sequencing
3.5 years ago by marongiu.luigi ▴ 710
0
votes
1
reply
598
views
How to be sure that the microbiome I obtained is sound?
alignment sequencing next-gen assembly error
updated 2.9 years ago by ▴ 160 • written 3.6 years ago by ▴ 710
0
votes
1
reply
957
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 20 • written 3.9 years ago by ▴ 710
6
votes
6
replies
8.1k
views
premade BWA hg38 index
genome Assembly next-gen
updated 3.8 years ago by 20 • written 6.4 years ago by ▴ 710
3
votes
3
replies
3.0k
views
What is the story behind chrEBV?
Assembly next-gen genome
3.8 years ago by marongiu.luigi ▴ 710
3
votes
4
replies
896
views
How to test transposition in BAM files?
Assembly sequencing trasnposition
3.9 years ago by marongiu.luigi ▴ 710
3
votes
4
replies
4.0k
views
sambamba-sort: Error reading BGZF with BAM file
software error sort sambamba
updated 3.9 years ago by 82k • written 3.9 years ago by ▴ 710
8
votes
2
replies
857
views
What species are indicators of environmental contamination in metagenomic studies?
WGS alignment assembly RNA-Seq contamination
updated 4.0 years ago by 6.4k • written 4.0 years ago by ▴ 710
2
votes
4
replies
758
views
Is there a model for detection of few reads for low abundance targets?
WGS alignment next-gen sequencing
4.0 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 82k • written 4.1 years ago by ▴ 710
2
votes
2
replies
745
views
Interpretation of sparse reads
assembly next-gen interpretation alignment
updated 4.1 years ago by 6.4k • written 4.1 years ago by ▴ 710
3
votes
4
replies
1.4k
views
convert NCBI to GO terms with biomart for r
conversion ncbi ensembl R biomart
updated 4.1 years ago by 11k • written 4.1 years ago by ▴ 710
8
votes
6
replies
4.7k
views
how to unpack sra file?
SRA file use unpack
updated 4.2 years ago by 3.9k • written 4.2 years ago by ▴ 710
154 results • Page 1 of 4
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