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231
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Normalization strategies for comparing mapped reads across samples in RNA-seq
normalization rnaseq
updated 5 weeks ago by 43k • written 5 weeks ago by ▴ 640
1
vote
1
reply
213
views
Seeking for edgeR TMM Normalization calcul example
tmm edgeR deseq2
updated 6 weeks ago by ★ 16k • written 6 weeks ago by ▴ 640
0
votes
3
replies
395
views
GO enrichment plot with dotplot strange axis
enrichment go plot
updated 3 months ago by ★ 2.4k • written 3 months ago by ▴ 640
0
votes
1
reply
454
views
Seurat: How to get all genes name of a cell ?
seurat
updated 11 months ago by ★ 1.8k • written 11 months ago by ▴ 640
0
votes
1
reply
537
views
DESeq2 : parameter of Negative Binomial model in a context of gene expression
rnaseq DESeq2 NB
11 months ago by Picasa ▴ 640
2
votes
11
replies
6.3k
views
7 follow
PCA on VCF
pca vcf
updated 21 months ago by 22k • written 8.1 years ago by ▴ 640
0
votes
6
replies
4.3k
views
Merging vcf files ?
vcf
updated 23 months ago by • 0 • written 7.9 years ago by ▴ 640
0
votes
3
replies
852
views
Alignment of genomes and get statistics about alignment
genome
updated 2.6 years ago by ▴ 510 • written 2.6 years ago by ▴ 640
2
votes
2
replies
756
views
Primers and multimapping ?
primer3
updated 2.6 years ago by 82k • written 2.6 years ago by ▴ 640
2
votes
1
reply
795
views
R package for structural variation representation ?
structural variation mummer
updated 2.7 years ago by 3.9k • written 2.7 years ago by ▴ 640
2
votes
7
replies
3.2k
views
Using RNA seq for genome annotation
maker annotation
updated 2.9 years ago by 100k • written 6.9 years ago by ▴ 640
0
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0
replies
510
views
Phased SNPs with single rad seq data ?
snp rad single
3.0 years ago by Picasa ▴ 640
0
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0
replies
655
views
Alternative free software for recombination rate estimation ?
radseq joinmap stacks
3.0 years ago by Picasa ▴ 640
0
votes
0
replies
993
views
Tools for .hic file visualization
juicer 3d-dna hic
3.2 years ago by Picasa ▴ 640
0
votes
1
reply
814
views
Assessing collapsed assembly ?
Assembly paralogue collapsing
updated 3.9 years ago by 6.4k • written 3.9 years ago by ▴ 640
2
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5
replies
1.3k
views
Best way for phylogenetic tree with missing data
phylogenetic tree
updated 3.9 years ago by ★ 27k • written 3.9 years ago by ▴ 640
3
votes
3
replies
1.4k
views
Transcript or cds for phylogenetic tree ?
msa phylogenetic
updated 4.0 years ago by 15k • written 4.0 years ago by ▴ 640
1
vote
0
replies
613
views
Subset long reads and optimal coverage
long reads Assembly
updated 4.0 years ago by 20 • written 4.0 years ago by ▴ 640
3
votes
4
replies
1.0k
views
Structural variation germline vs somatic ?
structural variation germline somatic
updated 4.1 years ago by ▴ 10 • written 4.1 years ago by ▴ 640
2
votes
3
replies
864
views
How to get Gene ID from NCBI accession for non model species ?
gene id ncbi accession
updated 4.1 years ago by 142k • written 4.1 years ago by ▴ 640
6
votes
6
replies
1.3k
views
Where to upload protein coding gene annotation ?
maker protein
updated 4.1 years ago by 8.6k • written 4.1 years ago by ▴ 640
0
votes
3
replies
1.4k
views
RepeatMasker overlap and interpretation
repeat overlap
updated 4.1 years ago by 15k • written 4.1 years ago by ▴ 640
1
vote
3
replies
895
views
Contig longer than mitochondrial sequence. Explanation ?
mitochondrial contig
updated 4.2 years ago by ▴ 290 • written 4.2 years ago by ▴ 640
0
votes
1
reply
843
views
hi-c coverage for scaffolding
hi c scaffold Assembly
4.3 years ago by Picasa ▴ 640
0
votes
1
reply
845
views
SnpEff database with maker annotation format
maker snpeff
updated 4.4 years ago by ▴ 70 • written 4.4 years ago by ▴ 640
1
vote
4
replies
1.4k
views
Extract genes from GTF with variants from VCF
gtf variants
4.5 years ago by Picasa ▴ 640
1
vote
4
replies
1.3k
views
Get counts for allele specific expression analysis
RNA-Seq allele expression ase-tigar
4.5 years ago by Picasa ▴ 640
5
votes
7
replies
2.2k
views
Scaffolding a genome with long reads.
assembly long reads pacbio
updated 4.6 years ago by 15k • written 4.6 years ago by ▴ 640
2
votes
1
reply
2.4k
views
Option -categorize in SNAP gene prediction.
annotation snap maker
updated 4.6 years ago by 20 • written 7.6 years ago by ▴ 640
1
vote
10
replies
1.5k
views
Location of centromere
genome centromere
4.8 years ago by Picasa ▴ 640
1
vote
9
replies
7.4k
views
7 follow
Hybrid assembly PacBio Illumina in 2018 ?
pacbio illumina hybrid assembly
updated 4.9 years ago by • 0 • written 6.2 years ago by ▴ 640
2
votes
2
replies
9.8k
views
Multiple whole genome alignment tools ?
multiple whole genome alignment
4.9 years ago by Picasa ▴ 640
4
votes
4
replies
4.4k
views
Assembly of amplicons
amplicon assembly pcr
updated 4.9 years ago by 20 • written 7.6 years ago by ▴ 640
4
votes
8
replies
1.6k
views
EBI submission and AGP ?
agp ebi
5.2 years ago by Picasa ▴ 640
1
vote
5
replies
2.9k
views
What coverage is recommended for amplicon sequencing?
amplicon coverage
5.3 years ago by Picasa ▴ 640
0
votes
1
reply
2.5k
views
blast strand plus minus
blast strand
updated 5.4 years ago by 20 • written 7.5 years ago by ▴ 640
1
vote
3
replies
4.0k
views
Primer-blast impossible with multiple sequences ?
primer-blast sequences
updated 5.4 years ago by 20 • written 5.5 years ago by ▴ 640
7
votes
13
replies
2.0k
views
How to extract the same mapped region by multiple samples ?
bam samples map
updated 5.5 years ago by 35k • written 5.5 years ago by ▴ 640
2
votes
10
replies
2.2k
views
Primer design from bam file ?
primer map
updated 5.5 years ago by 47k • written 5.5 years ago by ▴ 640
0
votes
2
replies
1.5k
views
What is an optical map ?
assembly optical map scaffold
5.6 years ago by Picasa ▴ 640
2
votes
1
reply
2.8k
views
coverage in amplicon sequecing method
coverage
updated 5.6 years ago by 43k • written 8.2 years ago by ▴ 640
6
votes
24
replies
4.6k
views
Custom nr database with only arthropods ?
nr blast arthropods
updated 5.7 years ago by 8.5k • written 5.7 years ago by ▴ 640
1
vote
2
replies
1.3k
views
Pacbio inversion visualization and IGV
inversion igv
5.7 years ago by Picasa ▴ 640
3
votes
1
reply
1.9k
views
Parameter to filter a VCF of SNPs?
vcf SNP parameters
updated 5.7 years ago by 43k • written 5.7 years ago by ▴ 640
0
votes
2
replies
1.1k
views
n50 contig with pacbio nowadays ?
n50 pacbio
updated 5.8 years ago by 20 • written 5.9 years ago by ▴ 640
0
votes
1
reply
1.3k
views
Inversion detection between 2 genomes
inversion genome
updated 5.9 years ago by 47k • written 5.9 years ago by ▴ 640
6
votes
5
replies
4.2k
views
Doubt on removing duplicates on amplicon sequencing data
duplicates amplicon
updated 6.0 years ago by 104k • written 6.0 years ago by ▴ 640
9
votes
5
replies
8.7k
views
BWA error [bns_restore_core] Parse error reading
bwa index
updated 6.1 years ago by ▴ 120 • written 7.4 years ago by ▴ 640
2
votes
2
replies
7.5k
views
From a vcf SNP file to a phylogenetic tree
SNP vcf phylogenetic
updated 6.2 years ago by ▴ 130 • written 6.2 years ago by ▴ 640
1
vote
7
replies
5.0k
views
GATK combine gvcf superslow
gatk CombineGVCFs GenomicsDBImport
6.2 years ago by Picasa ▴ 640
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