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Showing :
questions
5
votes
7
replies
8.2k
views
Remove adaptaters from ONT reads : An alternative to Porechop ?
minion
promethion
porechop
nanopore
ONT
oxford
updated 3 months ago by
Michael
54k • written 5.5 years ago by
Rox
★ 1.4k
3
votes
1
reply
1.6k
views
Breakdancer : bam2cfg.pl doesn't work with merged bam
breakdancer
updated 2.0 years ago by
huirusun0305
• 0 • written 6.3 years ago by
Rox
★ 1.4k
2
votes
3
replies
869
views
How to associate Trinity ID with close related species transcript ID
trinity
transcriptome
updated 2.3 years ago by
Michael
54k • written 2.3 years ago by
Rox
★ 1.4k
7
votes
1
reply
1.2k
views
General question about clustering in scRNAseq
scRNAseq
Seurat
clustering
updated 2.6 years ago by
Pratik
★ 1.0k • written 2.6 years ago by
Rox
★ 1.4k
0
votes
3
replies
1.5k
views
Issue reading fasta file with Biopython
python
2.7 years ago by
Rox
★ 1.4k
3
votes
1
reply
1.5k
views
Interpretation of .gfa
flye
bandage
assembly
2.7 years ago by
Rox
★ 1.4k
0
votes
1
reply
1.4k
views
Issue indexing a genome with bowtie2
software error
bowtie2
3.4 years ago by
Rox
★ 1.4k
0
votes
5
replies
2.4k
views
Calculate numbers of indels <=2 nt within sam
script
updated 3.5 years ago by
Biostar
20 • written 6.9 years ago by
Rox
★ 1.4k
0
votes
0
replies
1.1k
views
Explaining myJuicer.sh different steps
hi-c
juicer
3.8 years ago by
Rox
★ 1.4k
6
votes
12
replies
4.6k
views
Python and SLURM environment : clarifications needed
python
slurm
updated 4.6 years ago by
Biostar
20 • written 4.7 years ago by
Rox
★ 1.4k
6
votes
5
replies
8.4k
views
Snakemake input and wildcards
snakemake
python
updated 4.7 years ago by
Thibault D.
▴ 700 • written 4.7 years ago by
Rox
★ 1.4k
3
votes
1
reply
3.7k
views
How to use minimap2 with mappy within python script
alignment
nanopore
4.7 years ago by
Rox
★ 1.4k
3
votes
3
replies
1.3k
views
Looking for a file : Complete Ref Seq Systematic Classification
classification
updated 5.7 years ago by
Sej Modha
5.3k • written 5.7 years ago by
Rox
★ 1.4k
5
votes
17
replies
2.0k
views
Using the right reference to identify sequences origin
genome
sequence
updated 5.7 years ago by
5heikki
11k • written 5.7 years ago by
Rox
★ 1.4k
4
votes
14
replies
4.2k
views
[PacBio assembly] Remaining indels after polishing
PacBio
Assembly
polishing
quiver
5.8 years ago by
Rox
★ 1.4k
15
votes
22
replies
6.3k
views
7 follow
Alternative to BLASR ?
PacBio
assembly
alignement
updated 5.8 years ago by
harish
▴ 450 • written 7.3 years ago by
Rox
★ 1.4k
10
votes
33
replies
3.9k
views
Looking for a tool like fastq screen but for ONT data
gridion
nanopore
ont
minion
updated 10 months ago by
Ram
43k • written 5.8 years ago by
Rox
★ 1.4k
0
votes
11
replies
3.9k
views
Maker failure on almost all contig
maker
annotation
software error
6.5 years ago by
Rox
★ 1.4k
6
votes
6
replies
4.3k
views
Polishing PacBio assembly : The ideal coverage for higly polymorphic species
genome assembly
pacbio
polishing
busco
6.6 years ago by
Rox
★ 1.4k
0
votes
0
replies
1.4k
views
Missing file for RepeatModeler installation
repeatModeler
repeatMasker
6.7 years ago by
Rox
★ 1.4k
0
votes
2
replies
2.1k
views
Tool for manual annotation curation
annotation
updated 10 months ago by
Ram
43k • written 6.7 years ago by
Rox
★ 1.4k
1
vote
5
replies
1.6k
views
Interpreting coverage gaps when aligning Illumina reads against PacBio assembly
Assembly
PacBio
Illumina
alignement
6.7 years ago by
Rox
★ 1.4k
1
vote
1
reply
1.9k
views
How to launch a local Blast through java
java
blast
6.8 years ago by
Rox
★ 1.4k
0
votes
0
replies
2.1k
views
Check an abinitio annotation from Augustus
annotation
genome
updated 6.9 years ago by
Biostar
20 • written 7.8 years ago by
Rox
★ 1.4k
20
votes
10
replies
9.4k
views
[BioPython] Parse blast tabular output
python
biopython
blast
updated 7.0 years ago by
Andrzej Zielezinski
11k • written 7.0 years ago by
Rox
★ 1.4k
0
votes
1
reply
2.2k
views
Descrease annotation running time by spliting contigs into separated files (maker)
genome
annotation
maker
7.1 years ago by
Rox
★ 1.4k
6
votes
13
replies
5.9k
views
Order contig by size
assembly
script
updated 7.1 years ago by
shenwei356
8.5k • written 7.1 years ago by
Rox
★ 1.4k
0
votes
1
reply
1.4k
views
Extract subset of genes from EMBL file
EMBL
RATT
updated 10 months ago by
Ram
43k • written 7.2 years ago by
Rox
★ 1.4k
2
votes
6
replies
2.1k
views
Aligning very short and paired Illumina reads
alignement
Illumina
genome
7.3 years ago by
Rox
★ 1.4k
14
votes
2
replies
7.0k
views
Trouble with Pilon installation
polishing
pilon
installation
updated 18 days ago by
Lissa Cruz Saavedra
• 0 • written 7.3 years ago by
Rox
★ 1.4k
0
votes
1
reply
2.4k
views
Group a set of plots using MUMmer
alignment
mummer
mummer-plot
updated 7.3 years ago by
skbrimer
▴ 740 • written 7.3 years ago by
Rox
★ 1.4k
2
votes
35
replies
11k
views
BWA-MEM using long PacBio reads
PacBio
alignement
bwa-mem
sam
updated 7.3 years ago by
Brian Bushnell
20k • written 7.3 years ago by
Rox
★ 1.4k
0
votes
6
replies
2.3k
views
Does amovalidate pipeline is suited for long read assembly from PacBio ?
genome
assembly
pacbio
long read
7.3 years ago by
Rox
★ 1.4k
0
votes
0
replies
2.2k
views
Pacific Biosciences pitchfork installation
software error
PacBio
quiver
7.3 years ago by
Rox
★ 1.4k
0
votes
1
reply
1.7k
views
How to transform rectangular matrix in Newick tree with java
java
matrix
programming
7.6 years ago by
Rox
★ 1.4k
1
vote
2
replies
2.1k
views
What is the "referenceFilename" that Quiver needs to polish a assembly ?
Assembly
updated 7.6 years ago by
colindaven
6.4k • written 7.9 years ago by
Rox
★ 1.4k
12
votes
15
replies
9.9k
views
8 follow
Training Augustus for Maker
annotation
maker
augustus
updated 7.7 years ago by
Juke34
8.6k • written 7.7 years ago by
Rox
★ 1.4k
26
votes
11
replies
7.2k
views
Alternative to Cufflinks ?
software error
Assembly
RNA-Seq
updated 7.7 years ago by
i.sudbery
19k • written 7.7 years ago by
Rox
★ 1.4k
0
votes
8
replies
2.7k
views
Bowtie2 through tophat2 issue : Error reading RefRecord 'first' flag
software error
bowtie2
tophat2
bowtie
tophat
7.7 years ago by
Rox
★ 1.4k
6
votes
6
replies
6.3k
views
Easy way to merge several gff output from maker
annotation
script
genome
updated 7.7 years ago by
Philipp Bayer
8.4k • written 7.7 years ago by
Rox
★ 1.4k
1
vote
3
replies
3.1k
views
How to use multi thread Maker without mpi
software error
genome
annotation
7.8 years ago by
Rox
★ 1.4k
4
votes
4
replies
2.4k
views
Cufflinks is frozen
rna-seq
Assembly
software error
updated 7.8 years ago by
andrew.j.skelton73
6.6k • written 7.8 years ago by
Rox
★ 1.4k
2
votes
3
replies
5.2k
views
Convert GTF file into GFF3 file
script
updated 7.8 years ago by
Sej Modha
5.3k • written 7.8 years ago by
Rox
★ 1.4k
1
vote
7
replies
2.2k
views
Optimal parameters for Tophat on drosphila data
Assembly
RNA-Seq
7.8 years ago by
Rox
★ 1.4k
13
votes
29
replies
8.7k
views
First time using maker
genome
annotation
maker
7.8 years ago by
Rox
★ 1.4k
1
vote
1
reply
1.5k
views
Trouble using Cluster-Buster
motif-finding
motif
7.8 years ago by
Rox
★ 1.4k
1
vote
2
replies
1.5k
views
Documentation about Bio. Site.search_pwm method in BioPython
biopython
updated 7.8 years ago by
samuelmiver
▴ 440 • written 7.8 years ago by
Rox
★ 1.4k
0
votes
2
replies
2.9k
views
Canu assembler : meryl failed after 2 attempts
Assembly
software error
updated 7.9 years ago by
GenoMax
142k • written 7.9 years ago by
Rox
★ 1.4k
2
votes
3
replies
5.7k
views
What are the ".bax.h5" files generated by PacBio long reads sequencing ?
Assembly
sequencing
updated 7.9 years ago by
Pierre Lindenbaum
161k • written 7.9 years ago by
Rox
★ 1.4k
2
votes
3
replies
1.6k
views
Looking for a tool for eukaryotic and diploid genome annotation
sequence
genome
gene
updated 7.9 years ago by
Juke34
8.6k • written 7.9 years ago by
Rox
★ 1.4k
51 results • Page
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