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Showing :
questions
0
votes
0
replies
138
views
Bacterial genome alignment with mauve
Bacteria
mauve
genome
5 days ago by
rthapa
▴ 90
1
vote
5
replies
1.5k
views
allele frequency from different read depths
allele
depth
frequency
vcf
read
updated 2.9 years ago by
pbpanigrahi
▴ 420 • written 2.9 years ago by
rthapa
▴ 90
0
votes
2
replies
1.1k
views
subset of paired end reads from bam file or fastq file of different depth
depth
ShortRead
samtools
read
2.9 years ago by
rthapa
▴ 90
0
votes
3
replies
977
views
Issue on downloading fastPHASE in Mac
fastPHASE
updated 3.0 years ago by
4galaxy77
2.8k • written 3.7 years ago by
rthapa
▴ 90
0
votes
0
replies
569
views
Discrepancy in structural variants results from mauve and MUM&Co
assembly
structural variants
mauve
MUMandCo
updated 3.1 years ago by
Biostar
20 • written 3.2 years ago by
rthapa
▴ 90
0
votes
0
replies
646
views
Identification of presence of genes by aligning the illumina reads to reference genome with Geneious
geneious
alignment
mapping
3.1 years ago by
rthapa
▴ 90
0
votes
0
replies
412
views
finding coverage of particular gene sequence from illumina short reads
coverage
illumina
3.2 years ago by
rthapa
▴ 90
0
votes
7
replies
3.8k
views
MUMmer plot visualization
MUMmer plot
updated 10 weeks ago by
Carlos
• 0 • written 3.2 years ago by
rthapa
▴ 90
0
votes
0
replies
678
views
MUMmer for structural variant call
MUMmer
structural variants
circlator
3.2 years ago by
rthapa
▴ 90
0
votes
0
replies
599
views
Assembly based structural variants detection
Assembly
structural variants
syri
mumandco
3.2 years ago by
rthapa
▴ 90
0
votes
0
replies
514
views
Structural variants call from circular genome
Assembly
structural variants
bacterial genome
3.2 years ago by
rthapa
▴ 90
0
votes
3
replies
912
views
Assembly based structural variants call from bacterial genome
nanopore
structural variants
Assembly
3.2 years ago by
rthapa
▴ 90
0
votes
4
replies
1.0k
views
Structural variants detection from assembled genome from Nanopore sequence data
genome
Assembly
nanopore
updated 3.3 years ago by
trausch
★ 1.9k • written 3.3 years ago by
rthapa
▴ 90
2
votes
5
replies
1.3k
views
bacterial genome assembly output from canu
bacteria
genome
assembly
canu
updated 3.3 years ago by
juanjo75es
▴ 130 • written 3.3 years ago by
rthapa
▴ 90
1
vote
5
replies
1.2k
views
de novo genome assembly of bacterial genome
assembly
genome
bacteria
updated 3.3 years ago by
h.mon
35k • written 3.4 years ago by
rthapa
▴ 90
0
votes
1
reply
955
views
structural variants from mauve
structural variants
mauve
de novo assembly
updated 3.3 years ago by
Biostar
20 • written 3.4 years ago by
rthapa
▴ 90
0
votes
3
replies
961
views
bacterial genome assembly with canu and alignment with reference genome with mauve
Assembly
canu
mauve
3.4 years ago by
rthapa
▴ 90
0
votes
3
replies
719
views
bacterial genome assembly with nano pore sequence data
assembly
nanopore
3.5 years ago by
rthapa
▴ 90
0
votes
0
replies
786
views
Vst estimation across different populations from copy number data
genome
Copy number
Vst
3.6 years ago by
rthapa
▴ 90
1
vote
5
replies
2.4k
views
mauve for contigs
genome
mauve
updated 3.6 years ago by
hugo.avila
▴ 490 • written 3.6 years ago by
rthapa
▴ 90
1
vote
2
replies
769
views
Copy number variation data for population structure analysis
CNV
updated 18 months ago by
Siyuan Feng
▴ 10 • written 3.6 years ago by
rthapa
▴ 90
0
votes
6
replies
4.1k
views
B allele frequency (BAF)
snp
updated 3.6 years ago by
bernatgel
★ 3.4k • written 3.6 years ago by
rthapa
▴ 90
0
votes
3
replies
1.4k
views
KaryoploteR for copy number
genome
KaryoploteR
updated 3.9 years ago by
Philipp Bayer
8.3k • written 3.9 years ago by
rthapa
▴ 90
3
votes
1
reply
2.3k
views
quality check of vcf files
vcf
SNP
updated 3.9 years ago by
a.alnawfal.1992
▴ 240 • written 3.9 years ago by
rthapa
▴ 90
0
votes
0
replies
692
views
CNVRs visualization with karyoploteR
cnv
4.0 years ago by
rthapa
▴ 90
0
votes
0
replies
562
views
Phenotypic evaluation of significant SNPs from GWAS result
SNP
4.0 years ago by
rthapa
▴ 90
0
votes
0
replies
816
views
GWAS of ordinal phenotypes with MCMCglmm model
SNP
r
4.1 years ago by
rthapa
▴ 90
0
votes
12
replies
4.2k
views
error reading bed files for bedtools intersect
bedtools
intersect
updated 4.3 years ago by
Pierre Lindenbaum
161k • written 4.3 years ago by
rthapa
▴ 90
0
votes
0
replies
1.2k
views
GO term using GOAtools
GOAtools
4.3 years ago by
rthapa
▴ 90
0
votes
3
replies
801
views
methylation coverage in the gene region
methylation
4.5 years ago by
rthapa
▴ 90
0
votes
0
replies
830
views
codon adaptation index (CAI) estimation
codon usage
4.5 years ago by
rthapa
▴ 90
0
votes
0
replies
838
views
codon bias estimation (CAI)
protein
4.5 years ago by
rthapa
▴ 90
1
vote
1
reply
1.0k
views
methylation coverage in the gene region
methylation
updated 4.5 years ago by
ATpoint
82k • written 4.5 years ago by
rthapa
▴ 90
1
vote
3
replies
1.1k
views
coverage of narrow peaks on genomic region using bedtools
ChIP-Seq
updated 4.5 years ago by
Brice Sarver
★ 3.8k • written 4.5 years ago by
rthapa
▴ 90
4
votes
13
replies
5.1k
views
pysam alignment error
alignment
updated 4.5 years ago by
Jianyu
▴ 580 • written 4.5 years ago by
rthapa
▴ 90
0
votes
1
reply
737
views
parent GO terms
genome
4.5 years ago by
rthapa
▴ 90
3
votes
1
reply
829
views
Chip seq coverage
ChIP-Seq
4.5 years ago by
rthapa
▴ 90
0
votes
0
replies
625
views
SNP density per genes
SNP
4.6 years ago by
rthapa
▴ 90
0
votes
0
replies
743
views
Maximum intensity among overlapping peaks and peak coverage
ChIP-Seq
4.6 years ago by
rthapa
▴ 90
0
votes
1
reply
1.7k
views
DESeq2 lfc shrinkage
rna-seq
updated 4.9 years ago by
lshepard
▴ 470 • written 6.3 years ago by
rthapa
▴ 90
0
votes
1
reply
796
views
Significance level of each variable used in the model
RNA-Seq
updated 5.1 years ago by
Kevin Blighe
87k • written 5.1 years ago by
rthapa
▴ 90
0
votes
1
reply
852
views
Haplotypes analysis from SNP chip data
SNP
updated 5.1 years ago by
Kevin Blighe
87k • written 5.1 years ago by
rthapa
▴ 90
1
vote
2
replies
2.4k
views
r2 and LD value estimation between significant SNPs identified from GWAS
SNP
R
5.1 years ago by
rthapa
▴ 90
0
votes
1
reply
702
views
Comparison of samples of different read lengths in differential gene expression analysis
RNA-Seq
updated 5.2 years ago by
swbarnes2
14k • written 5.2 years ago by
rthapa
▴ 90
0
votes
6
replies
2.4k
views
extra gene ids in gene count matrix than in gtf file
RNA-Seq
5.2 years ago by
rthapa
▴ 90
1
vote
2
replies
1.1k
views
Subset of samples from a large hap map dataset
SNP
updated 5.3 years ago by
Biostar
20 • written 5.3 years ago by
rthapa
▴ 90
0
votes
1
reply
1.2k
views
txt files of upregulated and down regulated genes
RNA-Seq
updated 6.3 years ago by
WouterDeCoster
47k • written 6.3 years ago by
rthapa
▴ 90
9
votes
5
replies
4.2k
views
best value of lfc threshold
RNA-Seq
updated 6.3 years ago by
Kevin Blighe
87k • written 6.3 years ago by
rthapa
▴ 90
5
votes
2
replies
3.3k
views
transcript count after string tie merge
rna-seq
stringtie
updated 6.3 years ago by
Kevin Blighe
87k • written 6.3 years ago by
rthapa
▴ 90
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