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questions
3
votes
2
replies
4.7k
views
RAxML: confusion about Bootstrap searches and ML searches
bootstrap
raxml
updated 6.2 years ago by
ArtemP
▴ 30 • written 7.4 years ago by
Picasa
▴ 640
0
votes
1
reply
2.3k
views
Doubt about batch effect and gene expression analysis
gene expression
batch
limma
updated 6.3 years ago by
Kevin Blighe
87k • written 6.3 years ago by
Picasa
▴ 640
3
votes
3
replies
4.8k
views
Cutoff for TPM value
tpm
transcriptome
updated 6.4 years ago by
Matteo Schiavinato
★ 3.6k • written 6.5 years ago by
Picasa
▴ 640
2
votes
3
replies
4.5k
views
Intron size from gtf/gff file ?
intron
annotation
updated 6.4 years ago by
Hussain Ather
▴ 990 • written 6.4 years ago by
Picasa
▴ 640
1
vote
1
reply
2.5k
views
Gene expression PCA with DESeq2 filtration
PCA
rna
filtration
updated 6.5 years ago by
Kevin Blighe
87k • written 6.5 years ago by
Picasa
▴ 640
0
votes
0
replies
2.7k
views
Filter transcripts based on expression value: TPM vs TMM ?
transcriptome
tpm
tmm
6.5 years ago by
Picasa
▴ 640
2
votes
4
replies
1.3k
views
Converting PE to SE
PE SE
6.6 years ago by
Picasa
▴ 640
2
votes
4
replies
2.0k
views
Extract all paired reads from sam file
sam
paired
updated 6.6 years ago by
ATpoint
82k • written 6.6 years ago by
Picasa
▴ 640
6
votes
2
replies
7.3k
views
MAKER annotation post processing (AED score)
maker
aed
updated 6.6 years ago by
dfajar2
▴ 140 • written 6.8 years ago by
Picasa
▴ 640
2
votes
1
reply
3.0k
views
Extract reads from specific target in .bam file
bam
filter
6.6 years ago by
Picasa
▴ 640
1
vote
3
replies
1.8k
views
Best de novo genome assemblies using only Illumina data ??
de novo assembly
illumina
7.1 years ago by
Picasa
▴ 640
11
votes
10
replies
4.2k
views
What can I do after my Pacbio genome assembly ?
pacbio
updated 7.1 years ago by
Rox
★ 1.4k • written 7.1 years ago by
Picasa
▴ 640
0
votes
4
replies
813
views
Most represented reads in SAM file
sam
reads
representated
7.1 years ago by
Picasa
▴ 640
0
votes
3
replies
6.3k
views
Mismatch setting for bwa mem ?
bwa mem
mismatch
7.3 years ago by
Picasa
▴ 640
1
vote
3
replies
3.4k
views
Help for limma DE interpretation.
limma
rnaseq
updated 7.3 years ago by
Devon Ryan
104k • written 7.3 years ago by
Picasa
▴ 640
4
votes
4
replies
2.8k
views
PCA from kallisto output
kallsito
updated 7.3 years ago by
informatics bot
▴ 760 • written 7.3 years ago by
Picasa
▴ 640
3
votes
3
replies
13k
views
RAxML outputs: which one I have to take ?
RAxML output
updated 11 months ago by
Michael
54k • written 7.4 years ago by
Picasa
▴ 640
0
votes
3
replies
2.2k
views
Contig's coverage and bam files.
bam
contig
coverage
updated 7.3 years ago by
Biostar
20 • written 7.5 years ago by
Picasa
▴ 640
2
votes
2
replies
2.1k
views
Download Uniref ID though wget
uniref
updated 7.3 years ago by
Elisabeth Gasteiger
★ 2.4k • written 7.3 years ago by
Picasa
▴ 640
1
vote
3
replies
4.1k
views
Infering phylogenetic tree from MSA with MEGA ?
phylogenie
msa
mega
updated 7.3 years ago by
Biostar
20 • written 7.4 years ago by
Picasa
▴ 640
4
votes
3
replies
2.8k
views
Read filtering strategy and BWA
bwa
contamination
updated 7.4 years ago by
Brian Bushnell
20k • written 7.4 years ago by
Picasa
▴ 640
1
vote
3
replies
1.9k
views
Not consistent result between SAM filtering and bowtie
sam
bowtie
updated 7.4 years ago by
Biostar
20 • written 7.8 years ago by
Picasa
▴ 640
3
votes
4
replies
2.1k
views
Assessment of de novo genome assembly accuracy ?
genome accuracy
updated 7.4 years ago by
Brian Bushnell
20k • written 7.4 years ago by
Picasa
▴ 640
0
votes
3
replies
2.6k
views
My kmer distribution is weird
kmer
distribution
updated 7.4 years ago by
Biostar
20 • written 7.5 years ago by
Picasa
▴ 640
1
vote
3
replies
2.1k
views
BWA option for FR sens only
bwa mem
7.4 years ago by
Picasa
▴ 640
0
votes
0
replies
1.3k
views
Phylogenetic tree wth multi-genes but uneven sample
phylogenie
gene
7.4 years ago by
Picasa
▴ 640
0
votes
0
replies
1.8k
views
SSPACE option (-k and -a) for scaffolding
sspace
7.4 years ago by
Picasa
▴ 640
1
vote
6
replies
2.1k
views
Phylogenetic tree using ML algorithm
phylogenie
ML
updated 7.4 years ago by
Brice Sarver
★ 3.8k • written 7.4 years ago by
Picasa
▴ 640
11
votes
39
replies
4.2k
views
Any advice for a de novo genome assembly
k-mer
de novo
genome
assembly
updated 7.4 years ago by
krsahlin
▴ 60 • written 7.4 years ago by
Picasa
▴ 640
2
votes
6
replies
2.6k
views
Creating fastq files without duplicata from .bam file
picard
duplicates
fastq
bam
updated 7.4 years ago by
Medhat
9.7k • written 7.4 years ago by
Picasa
▴ 640
3
votes
6
replies
12k
views
Confusion about the kmer coverage
kmer
spades
updated 7.5 years ago by
mastal511
★ 2.1k • written 7.5 years ago by
Picasa
▴ 640
4
votes
18
replies
3.0k
views
Inline barcodes in the reverse reads
barcodes
7.5 years ago by
Picasa
▴ 640
4
votes
13
replies
3.6k
views
Confusion about barcodes and removal
barcodes
ngs
7.5 years ago by
Picasa
▴ 640
3
votes
4
replies
1.6k
views
Multiple alignment and phylogenetic tree resources
phylogenie
msa
updated 7.5 years ago by
confusedious
▴ 470 • written 7.5 years ago by
Picasa
▴ 640
1
vote
4
replies
2.5k
views
PCR duplicata and de novo assembly ??
pcr
duplicates
preqc
updated 7.5 years ago by
Medhat
9.7k • written 7.5 years ago by
Picasa
▴ 640
5
votes
6
replies
3.4k
views
Best de novo assembler for insect genome ?
assembler
updated 7.5 years ago by
Chris Fields
★ 2.2k • written 7.9 years ago by
Picasa
▴ 640
12
votes
9
replies
3.5k
views
Should I perform an error correction for an assembly ?
Assembly
error
updated 7.5 years ago by
lh3
33k • written 7.5 years ago by
Picasa
▴ 640
2
votes
17
replies
2.3k
views
ALLPATHS-LG slow ... multi threads possible ?
Assembly
allpaths
updated 7.6 years ago by
caizexi123
▴ 60 • written 7.6 years ago by
Picasa
▴ 640
1
vote
5
replies
1.8k
views
The header in SOAPdenovo output ??
soap
fasta
updated 7.6 years ago by
Prasad
★ 1.6k • written 7.8 years ago by
Picasa
▴ 640
1
vote
1
reply
2.1k
views
Should I run Gap close in assembly ?
gap close
updated 7.7 years ago by
Medhat
9.7k • written 7.8 years ago by
Picasa
▴ 640
2
votes
6
replies
1.7k
views
Confusion about the term genome coverage
coverage
library
updated 7.8 years ago by
thackl
★ 3.0k • written 7.8 years ago by
Picasa
▴ 640
4
votes
1
reply
978
views
Annotation workflows available ?
annotation
pipeline
7.8 years ago by
Picasa
▴ 640
0
votes
3
replies
4.7k
views
What is the best way to compute scaffold coverage ?
scaffold
coverage
7.8 years ago by
Picasa
▴ 640
5
votes
12
replies
4.8k
views
Extracting unmapped paired end from an alignment
bowtie2
sam
7.8 years ago by
Picasa
▴ 640
11
votes
9
replies
3.3k
views
Somebody has experiences with Illumina Synthetic Long-Read ?
illumina
updated 7.8 years ago by
GenoMax
141k • written 7.8 years ago by
Picasa
▴ 640
0
votes
2
replies
1.2k
views
Coverage after an assembly ?
Assembly
updated 7.8 years ago by
Sej Modha
5.3k • written 7.8 years ago by
Picasa
▴ 640
0
votes
0
replies
1.7k
views
Merging different VCF to discriminate samples.
vcf
variant
7.8 years ago by
Picasa
▴ 640
0
votes
1
reply
1.4k
views
Assenbly and mate pair processing ?
mate pair
7.9 years ago by
Picasa
▴ 640
0
votes
0
replies
1.9k
views
Anybody use Stacks to study RAD seq data ?
rad seq
stacks
7.9 years ago by
Picasa
▴ 640
14
votes
3
replies
11k
views
LD pruning and other QC before association analysis ?
gwas
qc
7.9 years ago by
Picasa
▴ 640
115 results • Page
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