Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
Showing : questions
0
votes
1
reply
285
views
How to obtain fine-scale classification from Kraken2
Kraken2 sequence metagenome assembly
updated 11 weeks ago by ★ 3.0k • written 12 weeks ago by ▴ 230
4
votes
9
replies
752
views
How to accelerate BLASTING
NCBI Blast sequence
3 months ago by anikcropscience ▴ 230
5
votes
4
replies
598
views
Docker container with multiple SNP calling tools
Docker SNP Genotyping
updated 3 months ago by 43k • written 3 months ago by ▴ 230
1
vote
5
replies
731
views
GATK GenomicsDBImport too slow
GATK SNP VCF
5 months ago by anikcropscience ▴ 230
5
votes
13
replies
1.7k
views
6 follow
GATK memory error with Java
VCF GATK SNP Java
updated 7 months ago by 20k • written 9 months ago by ▴ 230
4
votes
14
replies
1.3k
views
How to liftover SNP positions from one genome to another genome?
liftover SNP VCF alignment
updated 9 months ago by 43k • written 9 months ago by ▴ 230
4
votes
14
replies
1.3k
views
6 follow
How to allocate memory and CPU without SLURM in a linux cluster?
linux HPC
10 months ago by anikcropscience ▴ 230
2
votes
4
replies
837
views
How to access mounted local storage server from WSL?
windows WSL
10 months ago by anikcropscience ▴ 230
0
votes
2
replies
640
views
Tools for SNP imputation
SNP Genotyping imputation
10 months ago by anikcropscience ▴ 230
2
votes
8
replies
1.5k
views
How to remove duplicate and reverse duplicate hits from BLASTn results?
bash-scripting gene R BLAST
14 months ago by anikcropscience ▴ 230
2
votes
6
replies
968
views
Bedtools give different output
bedtools annotation genome SNP bash
15 months ago by anikcropscience ▴ 230
1
vote
5
replies
1.1k
views
Which VCF file to select for generating Multiple sequence alignment of a gene?
VCF GATK sequence alignment
20 months ago by anikcropscience ▴ 230
2
votes
7
replies
1.4k
views
Converting VCF file to table format
SNP bash VCF R genome
21 months ago by anikcropscience ▴ 230
1
vote
2
replies
1.3k
views
FastaAlternateReferenceMaker is not outputting fasta sequence for multiple samples from a VCF
GATK SNP fasta sequence alignment
22 months ago by anikcropscience ▴ 230
2
votes
0
replies
711
views
How to estimate Watterson's Theta per population from ANGSD output?
SNP theta ANGSD nucleotide diversity genetic
23 months ago by anikcropscience ▴ 230
7
votes
7
replies
1.3k
views
How to obtain 200 bp flanking sequence from both sides of BLAST search?
sequence blast genome nucleotide
updated 23 months ago by 15k • written 23 months ago by ▴ 230
0
votes
2
replies
553
views
How to subset a multisample VCF file for performing selection scan analysis?
bash SNP vcftools genomics
updated 11 months ago by 43k • written 2.0 years ago by ▴ 230
0
votes
7
replies
1.9k
views
How to perform Allele balance on a VCF file from GATK?
bcftools SNP VCFtools GATK
updated 11 months ago by 43k • written 2.2 years ago by ▴ 230
0
votes
0
replies
325
views
How to understand improvement in genome annotation?
Hi-C genome pacbio diploid annotation
2.2 years ago by anikcropscience ▴ 230
2
votes
0
replies
377
views
Should one concatenate two haplotype genome assemblies into one assembly?
PacBio genome-assembly whole-genome-sequence Hi-C
updated 15 months ago by 43k • written 2.3 years ago by ▴ 230
8
votes
12
replies
4.5k
views
How to run MD5 check for many fastq files in subdirectories?
sequencing MD5 genome Hiseq Illumina
updated 2.3 years ago by 21k • written 2.3 years ago by ▴ 230
0
votes
3
replies
849
views
How to perform Linkage Disequilibrium analysis for significantly associated K-mers?
next-gen genome snp assembly
updated 2.3 years ago by • 0 • written 3.2 years ago by ▴ 230
0
votes
0
replies
469
views
How to manually curate a genome assembly?
genome-assembly alignment dotplot whole-genome-sequence
updated 15 months ago by 43k • written 2.3 years ago by ▴ 230
1
vote
2
replies
867
views
How to improve a genome assembly using Dovetail and PacBio assembly?
genome HiFi PacBio assembly Dovetail
2.3 years ago by anikcropscience ▴ 230
0
votes
0
replies
428
views
How to deal with heterozygous genome assemblies for inversions, INDELs?
genome sequence SV heterozygosity assembly
2.4 years ago by anikcropscience ▴ 230
0
votes
3
replies
853
views
Blast command line pipeline not working
bash-scripting gene BLAST
updated 2.4 years ago by ▴ 610 • written 2.4 years ago by ▴ 230
3
votes
6
replies
4.8k
views
How to retrieve fasta sequence after local blast?
genome sequence blast
updated 2.4 years ago by ★ 2.5k • written 2.4 years ago by ▴ 230
0
votes
0
replies
396
views
How to extract homologous sequence data from multiple .vcf.gz files?
sequence gene homologous vcf
2.4 years ago by anikcropscience ▴ 230
0
votes
2
replies
1.5k
views
Socat not found in the /usr/bin folder in MacOS
Socat bash MacOS
2.4 years ago by anikcropscience ▴ 230
0
votes
0
replies
987
views
How to perform Synteny analysis for a single gene?
alignment SNP genome gene R
2.9 years ago by anikcropscience ▴ 230
0
votes
0
replies
1.2k
views
How to plot rarefaction curves in R using Vegan?
gene richness rarefaction R
2.9 years ago by anikcropscience ▴ 230
0
votes
3
replies
2.7k
views
How to estimate the percent phenotypic variation explained by the significant SNP from a GWAS study?
GWAS variance statistics SNP R-studio
3.0 years ago by anikcropscience ▴ 230
2
votes
8
replies
3.1k
views
How to produce a heatmap by keeping the original data and a log color scale?
R heatmap ggplot2 visualization
updated 3.0 years ago by 21k • written 3.0 years ago by ▴ 230
0
votes
0
replies
950
views
Adding Principal components as covariates in GWAS studies
PCA SNP GWAS GEMMA
3.0 years ago by anikcropscience ▴ 230
0
votes
2
replies
749
views
How to covert Plot_ly codes to ggplot2 codes?
R-studio GWAS visualization ggplot2
3.1 years ago by anikcropscience ▴ 230
0
votes
2
replies
1.3k
views
How to produce overlapping QQ-plot from GWAS results?
R data-visalization GWAS SNP
3.1 years ago by anikcropscience ▴ 230
0
votes
0
replies
743
views
How to produce multiple sequence alignment figures with phenotypic data?
alignment multiple-alignment sequence
3.1 years ago by anikcropscience ▴ 230
0
votes
0
replies
559
views
How to assemble short DNA sequences using ABYSS?
sequence multiple-alignment assembly
3.1 years ago by anikcropscience ▴ 230
1
vote
15
replies
3.4k
views
How to perform multiple alignment using MAFFT?
genome alignment gene sequence
3.1 years ago by anikcropscience ▴ 230
1
vote
2
replies
1.0k
views
How to choose the best alignment from mapping with bowtie2?
alignment bowtie2 sequence
3.1 years ago by anikcropscience ▴ 230
4
votes
7
replies
3.3k
views
How to use Bowtie to align a list of fasta sequence to a reference genome?
mapping genome alignment fasta genomics
updated 3.2 years ago by 142k • written 3.2 years ago by ▴ 230
1
vote
2
replies
863
views
How to do clustering of SNPs according to linkage disequilibrium (r2) values?
nex-gen R rna-seq snp genome
21 months ago by anikcropscience ▴ 230
2
votes
2
replies
1.3k
views
Why PLINK is producing different LD result with the same dataset?
SNP sequence genome R software error
updated 3.2 years ago by ★ 4.7k • written 3.2 years ago by ▴ 230
4
votes
6
replies
2.1k
views
How to move multiple files to multiple folders in linux/mac?
SNP genome next-gen Assembly sequence
updated 3.2 years ago by 22k • written 3.2 years ago by ▴ 230
0
votes
4
replies
2.1k
views
How to remove duplicate SNP IDs from VCF files?
SNP genome sequence
updated 3.3 years ago by 88k • written 3.3 years ago by ▴ 230
0
votes
0
replies
933
views
How to conduct linkage disequilibrium analysis in R?
SNP R genome
3.4 years ago by anikcropscience ▴ 230
8
votes
23
replies
4.3k
views
How to create a sequence alignment graph?
Assembly R sequence alignment
updated 2.8 years ago by ★ 2.5k • written 3.4 years ago by ▴ 230
0
votes
0
replies
760
views
How to do a network analysis using Post-GWAS data?
SNP gene R genome
3.6 years ago by anikcropscience ▴ 230
0
votes
0
replies
494
views
How does heritability estimation affects the genetic correlation?
SNP genome sequencing gene
3.6 years ago by anikcropscience ▴ 230
0
votes
0
replies
623
views
How to do linkage disequilibrium analyses?
alignment sequencing gene R SNP
3.6 years ago by anikcropscience ▴ 230
57 results • Page 1 of 2
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6