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10
votes
20
replies
3.8k
views
Plot number of mutations in each cancer type in VCF files?
vcf SNP plot
updated 17 months ago by ▴ 270 • written 5.8 years ago by ▴ 170
11
votes
7
replies
12k
views
How to include/keep only the samples in a list in VCF.gz file?
vcf samples bcftools
updated 17 months ago by 161k • written 5.8 years ago by ▴ 170
1
vote
2
replies
1.4k
views
Error wiht MUMMER mapview
Mummer mapview genome
updated 3.3 years ago by • 0 • written 5.2 years ago by ▴ 170
4
votes
7
replies
1.9k
views
SNP position in UTRs
SNP
updated 3.6 years ago by 20 • written 6.6 years ago by ▴ 170
5
votes
7
replies
12k
views
6 follow
AB1 to FASTQ
FASTQ AB1 CONVERSION
updated 4.3 years ago by ▴ 10 • written 6.1 years ago by ▴ 170
0
votes
2
replies
856
views
How to find mutations uniqueness in different resources/databases?
mutation databases clinical
updated 4.5 years ago by ★ 5.2k • written 4.5 years ago by ▴ 170
13
votes
13
replies
1.5k
views
Is reproducibility of identified variants in a gene important in Sanger sequencing?
reproducibility sanger sequencing variants
4.5 years ago by DanielC ▴ 170
2
votes
9
replies
1.2k
views
how many genomes from BLAST hit should be considered for phylogeny tree analysis?
phylogeny tree taxonomy genome
updated 4.5 years ago by 20 • written 4.6 years ago by ▴ 170
1
vote
8
replies
1.1k
views
Crystal structure of lambda phage?
phage lambda E-Coli
4.6 years ago by DanielC ▴ 170
0
votes
3
replies
765
views
How to performs genome assembly of multiple phages in one Fastq single-end file?
Assembly genome fastq
4.6 years ago by DanielC ▴ 170
0
votes
1
reply
946
views
Can DMPfold and I-Tasser work well for de novo structure prediction of 1135 amino acid long sequence?
protein-structure de novo prediction
updated 4.6 years ago by ▴ 390 • written 4.6 years ago by ▴ 170
4
votes
9
replies
2.6k
views
Calculate Ribosome Binding Score for ORFs?
ORF RBS
updated 4.6 years ago by ▴ 130 • written 4.9 years ago by ▴ 170
2
votes
4
replies
2.2k
views
Error with Formatdb of legacy blast?
formatdb database
updated 4.6 years ago by ★ 27k • written 4.6 years ago by ▴ 170
0
votes
0
replies
749
views
How to identify bacteria and outer membrane proteins of bacteria that correspond to an assembled phage?
phage bacteria beta-barrel outer membrane proteins
4.7 years ago by DanielC ▴ 170
1
vote
4
replies
15k
views
Where to download MinKnow software of MinION from?
Sequencing software MinIon
updated 4.7 years ago by 47k • written 4.7 years ago by ▴ 170
0
votes
0
replies
1.2k
views
Ensembl and Aceview - difference in the UTR sequence
sequence genome
updated 4.8 years ago by 20 • written 6.6 years ago by ▴ 170
2
votes
1
reply
1.3k
views
Draw annotations on the predicted CDS/genes using a software/tool
draw annotation genes Assembly
updated 4.8 years ago by 20 • written 5.0 years ago by ▴ 170
0
votes
0
replies
695
views
Predict the ligand binding site in an Outer Membrane Protein (OMP)?
docking simulation phage tail proteins OMP
4.9 years ago by DanielC ▴ 170
0
votes
4
replies
1.1k
views
Does Mauve tool work?
Mauve Gene
5.0 years ago by DanielC ▴ 170
0
votes
0
replies
741
views
Program to align big DNA sequences (100000 bases) and look at conserved regions among them?
DNA sequence alignment conserved region
5.0 years ago by DanielC ▴ 170
1
vote
11
replies
1.6k
views
Get protein domain information from nucleotide sequence of assembled contigs?
contig domain proteins interprp hmmpred
updated 5.0 years ago by 15k • written 5.0 years ago by ▴ 170
0
votes
0
replies
1.1k
views
View MAF file and the reference sequence in a genome viewer/annotator along with SAM/BAM?
SAM BAM MAF viewer
5.0 years ago by DanielC ▴ 170
0
votes
7
replies
3.5k
views
Manually curate gene annotation by visualizing on IGV or tablet or any better visualization tool
annotation visualize gene curate
5.0 years ago by DanielC ▴ 170
2
votes
3
replies
2.6k
views
Manual curation of annotated genes?
annotation gene Assembly
updated 5.0 years ago by 54k • written 5.0 years ago by ▴ 170
1
vote
3
replies
2.0k
views
Ensembl release 96 and 95
Ensembl dataset PERL API
5.1 years ago by DanielC ▴ 170
0
votes
4
replies
1.8k
views
Covert coordinates of a specific chromosome region from Grch38 to grch37?
grch38 co-ordinates grch37
updated 9 months ago by 43k • written 5.1 years ago by ▴ 170
0
votes
0
replies
1.3k
views
Quast shows different reads count for the same fastq file?
quast contig reads fastq
5.1 years ago by DanielC ▴ 170
3
votes
3
replies
2.5k
views
Forward and Reverse strand on gene annotation
gene annotation forward reads Reverse reads
updated 5.1 years ago by 20 • written 5.1 years ago by ▴ 170
0
votes
3
replies
4.0k
views
Prokka setupdb issue
prokka annotation contigs Assembly
5.1 years ago by DanielC ▴ 170
0
votes
7
replies
2.2k
views
Does SPAdes produce consensus sequence?
consensus Assembly
5.1 years ago by DanielC ▴ 170
0
votes
2
replies
1.3k
views
Consensus length longer than the longest assembled contig
DNA consensus contigs assembly gene annotation
updated 5.1 years ago by 35k • written 5.1 years ago by ▴ 170
6
votes
6
replies
2.6k
views
Tool for Phage/Virus gene prediction and annotation
gene annotation gene prediction prokaryotes phages
updated 5.1 years ago by 21k • written 5.1 years ago by ▴ 170
0
votes
0
replies
1.0k
views
Gaps in sequenced DNA consensus generated from contigs
gaps consensus contigs
5.1 years ago by DanielC ▴ 170
0
votes
2
replies
1.7k
views
Genome alignment with good pictorial representation of genome structure (with annotated genes)
gene gene annotation genome structure
updated 5.2 years ago by 35k • written 5.2 years ago by ▴ 170
0
votes
12
replies
2.4k
views
Best and reliable way to annotate genes? Here the genes belong to a assembled phage genome
phages DNAmaster Gene annotation
updated 5.3 years ago by ★ 4.0k • written 5.3 years ago by ▴ 170
0
votes
3
replies
1.8k
views
How to get a consensus of the contigs obtained from an assembler like spades?
contigs consensus spades
5.4 years ago by DanielC ▴ 170
0
votes
0
replies
883
views
Corrections of the peak areas of C13 isotopes of mass-spectrometry data using ICT package
mass-spectrometry ICT package C13
5.4 years ago by DanielC ▴ 170
0
votes
3
replies
1.4k
views
How to decide how many Iontorrent reads to run for contig assembly using Mira assembler?
Mira assembler Iointorrent Reads contigs
updated 5.4 years ago by 47k • written 5.4 years ago by ▴ 170
3
votes
6
replies
2.2k
views
How to Identify the pathogenicity of a set of variants (by using ACMG guidelines)?
pathogenicity SNP variants
updated 5.4 years ago by ▴ 40 • written 5.4 years ago by ▴ 170
0
votes
1
reply
1.6k
views
Where to get Epimatrix algorithm from for epitope binding prediction?
epimatrix epitope HLA
updated 5.4 years ago by ★ 3.0k • written 5.4 years ago by ▴ 170
5
votes
14
replies
5.7k
views
SPAdes output with assembling warning
spades assembling iontorrent sequence-reads
5.6 years ago by DanielC ▴ 170
2
votes
1
reply
3.0k
views
ubam to fastq?
ubam fastq sequencing
updated 5.6 years ago by 161k • written 5.6 years ago by ▴ 170
19
votes
24
replies
12k
views
How to plot a matrix with numbers in the matrix colored using ggplot2 or other ways in R?
SNP ggplot2 vcf matrix R
5.8 years ago by DanielC ▴ 170
32
votes
28
replies
6.1k
views
7 follow
How to make bash script operate fast for a 13gb VCF.gz file with 900000 rows and 10000 fields?
vcf bash
updated 5.8 years ago by 161k • written 5.8 years ago by ▴ 170
5
votes
24
replies
8.7k
views
Plink1.9 gives error when converting VCF.gz to PED? "Error read failure"
VCF Plink
5.9 years ago by DanielC ▴ 170
1
vote
8
replies
2.6k
views
GWAS analysis on merge TCGA exome data (vcf files)
GWAS SNP PLOTS
5.9 years ago by DanielC ▴ 170
1
vote
7
replies
2.5k
views
TCGA SNP analysis using manhattan plot and QQ plot
SNP TCGA plots
5.9 years ago by DanielC ▴ 170
1
vote
5
replies
1.3k
views
What statistical analysis to perform on data from gene expression analysis?
statistical gene expression data
6.0 years ago by DanielC ▴ 170
4
votes
12
replies
2.4k
views
Add new sequence to clustalw2 alignment
clustalw new sequence
6.0 years ago by DanielC ▴ 170
1
vote
1
reply
1.5k
views
Annotating and predicting the genomic region of a sequenced phage
Phage tail protein contigs blast
updated 6.0 years ago by 20 • written 6.1 years ago by ▴ 170
64 results • Page 1 of 2
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