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How do we know that the AMR genes/ MGEs in the contig sequence is on plasmid or Chromosome?
bacteria plasmid
updated 15 months ago by 43k • written 15 months ago by ▴ 170
1
vote
6
replies
880
views
How to download coronavirus genomes and its metadata file in only animals
coronavirus NCBI metadata Genome
updated 18 months ago by ▴ 720 • written 18 months ago by ▴ 170
11
votes
9
replies
4.5k
views
6 follow
How to run STAR with multiple files
alignment rna-seq SRAT-aligner
updated 19 months ago by ★ 4.3k • written 3.7 years ago by ▴ 170
2
votes
1
reply
629
views
How to make a phylogenetic tree using numerical values
phylogenetic phylip tree mlst genome
updated 20 months ago by ▴ 910 • written 20 months ago by ▴ 170
0
votes
0
replies
374
views
How to make phylogenetic using binary data
binary sequence phylogenetic tree
20 months ago by Kumar ▴ 170
0
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0
replies
375
views
How to run logisticPCA on binary data
Binary genome PCA logisticPCA
21 months ago by Kumar ▴ 170
0
votes
0
replies
490
views
hierBAPS for hierarchical clusters?
R SNP rhierbaps
21 months ago by Kumar ▴ 170
0
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8
replies
933
views
Combine metadata
python metadata genome
updated 22 months ago by 43k • written 22 months ago by ▴ 170
0
votes
3
replies
820
views
How to make a dataset of machine learning model for predicting antibiotic resistant?
learning bacteria antibiotic machine resistant
updated 2.0 years ago by ★ 27k • written 2.0 years ago by ▴ 170
1
vote
3
replies
833
views
How to run Trimmomatic with multiple files in a loop
Trimmomatic fastq trimming
updated 2.1 years ago by ★ 27k • written 2.1 years ago by ▴ 170
1
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2
replies
1.3k
views
How to run Unicycler for hybrid assembly with multiple samples
assembly fastq Unicycler bacteria
2.1 years ago by Kumar ▴ 170
0
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2
replies
764
views
How to illustrate positions (start and stop) of the genes in graphical view
Genes-regions genome positions
2.2 years ago by Kumar ▴ 170
2
votes
11
replies
2.4k
views
how to run seqkit in a loop with multiple files
seqkit scaffolds python
2.2 years ago by Kumar ▴ 170
0
votes
3
replies
2.1k
views
How to make circularize genome assembly after polishing
Assembly Genome Flye assember Pilon
updated 2.3 years ago by 3.6k • written 2.3 years ago by ▴ 170
1
vote
1
reply
615
views
How to perform multiple sequence alignment with large nucleotide sequence
genome multiple sequence alignment nucleotide
updated 2.4 years ago by 142k • written 2.4 years ago by ▴ 170
0
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3
replies
1.1k
views
How to assemble viral genome using MIRA assembler
assembly MIRA virus Genome
updated 2.4 years ago by 100k • written 2.4 years ago by ▴ 170
0
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9
replies
2.0k
views
How to make hybrid assembly of a viral genome
Virus Illumina Hybrid Genome assembly MinION
updated 2.4 years ago by ★ 2.4k • written 2.4 years ago by ▴ 170
0
votes
2
replies
978
views
How to calculate distance matrix and phylogenetic tree for genome alignment
distance phylogenetic Genome tree matrix
2.4 years ago by Kumar ▴ 170
0
votes
14
replies
2.5k
views
How to download all accession ID of CDS from all viral genome
genome accession viral NCBI nucleotide
updated 2.5 years ago by 142k • written 2.5 years ago by ▴ 170
0
votes
6
replies
1.2k
views
How to assemble a genome from scaffolds to Chromosome level
genome assemble Scaffolds
2.4 years ago by Kumar ▴ 170
1
vote
6
replies
1.9k
views
How to run MLST with multiple fastq files
MLST Bash Genome
2.6 years ago by Kumar ▴ 170
0
votes
6
replies
1.4k
views
How to execute one command on all files within a directory
Python FASTQ Perl
updated 2.5 years ago by ▴ 60 • written 2.7 years ago by ▴ 170
0
votes
2
replies
766
views
How to download fasta sequence of my interest from NCBI?
NCBI FASTA
updated 23 months ago by 43k • written 2.7 years ago by ▴ 170
2
votes
3
replies
2.3k
views
How to get GTF file of virus genome
genome gene assembly
updated 2.8 years ago by • 0 • written 3.9 years ago by ▴ 170
0
votes
0
replies
787
views
how to get effect sizes (R2) in result of GEMMA?
GEMMA SNP
updated 13 months ago by 43k • written 2.9 years ago by ▴ 170
3
votes
3
replies
4.3k
views
How to plot phylogenetic tree using R packages
ape phylogenetic ggtree
2.9 years ago by Kumar ▴ 170
0
votes
3
replies
1.3k
views
How to perform GO enrichment for non-model species
non-model-species Gene-Ontology GO-enrichment
2.9 years ago by Kumar ▴ 170
0
votes
9
replies
2.8k
views
How to perform GO enrichment using BiNGO at Cytoscape
Ontology BiNGO GO Enrichment Gene Cytoscape
3.0 years ago by Kumar ▴ 170
0
votes
2
replies
1.5k
views
How to grep fasta sequence using list of IDs
grep FASTA Sequence
3.0 years ago by Kumar ▴ 170
0
votes
8
replies
1.3k
views
How to compare data in two files and print matching data of file1 and file2
Genome Match SNPs
updated 3.0 years ago by 142k • written 3.0 years ago by ▴ 170
2
votes
4
replies
1.1k
views
How to capture the position of SNPs from the gene's locations
Bedtools Genome SNPs
3.0 years ago by Kumar ▴ 170
0
votes
4
replies
2.3k
views
How the calculated the decay line by nonlinear regression to the LD plot?
Linkage SNP Disequilibrium Population
3.0 years ago by Kumar ▴ 170
0
votes
0
replies
787
views
How to filter and impute missing snps in vcf file
Imputation SNPs PLINK VCF
3.1 years ago by Kumar ▴ 170
2
votes
1
reply
797
views
How to grep scaffold from the vcf file
introns VCF scaffolds
updated 3.1 years ago by 161k • written 3.1 years ago by ▴ 170
0
votes
20
replies
2.3k
views
Mixed Linear Model and GWAS study
GWAS SNPs Mixed Liner Model TASSEL
3.2 years ago by Kumar ▴ 170
0
votes
0
replies
692
views
How to add legend in Adegenet at R
GWAS SNPs R
3.2 years ago by Kumar ▴ 170
1
vote
10
replies
2.3k
views
ERROR::: vcf to PLINK
PLINK GWAS VCFs
updated 3.2 years ago by ★ 4.7k • written 3.2 years ago by ▴ 170
0
votes
0
replies
672
views
How to investigate population structure
GWAS VCFs genome Assembly
3.3 years ago by Kumar ▴ 170
0
votes
3
replies
1.0k
views
How to process metatranscriptomics data
rna-seq sequencing
3.3 years ago by Kumar ▴ 170
0
votes
6
replies
1.6k
views
Quantifying abundances of transcripts using kallisto
rna-seq kallisto next-gen
updated 3.5 years ago by 14k • written 3.5 years ago by ▴ 170
1
vote
2
replies
1.3k
views
How to do unsupervised clustering of RNA-Seq data
RNA-Seq clustering next-gen
3.5 years ago by Kumar ▴ 170
0
votes
1
reply
1.2k
views
How to make a PCA plot in three dimensional-RNA-Seq analysis
rna-seq PCA next-gen
3.5 years ago by Kumar ▴ 170
0
votes
9
replies
1.2k
views
How to run DESeq2 for multiple factors
rna-seq DESeq2 next-gen
3.6 years ago by Kumar ▴ 170
2
votes
3
replies
2.2k
views
how to process vcf files for GWAS analysis
GWAS sequencing next-gen vcf
3.6 years ago by Kumar ▴ 170
0
votes
3
replies
1.4k
views
DESeq2 analysis with high number of samples
RNA-Seq DESEQ2 next-gen
updated 3.6 years ago by 43k • written 3.6 years ago by ▴ 170
0
votes
10
replies
2.4k
views
How to do DESeq2 for Kallisto
Kallisto rna-seq DESeq2
3.7 years ago by Kumar ▴ 170
3
votes
12
replies
2.7k
views
RNASeq data: STAR low alignment score
alignment RNA-Seq STAR genome
updated 3.7 years ago by 20 • written 3.7 years ago by ▴ 170
0
votes
8
replies
2.7k
views
How to find adapter contamination information in MultiQC result
RNA-Seq MultiQC FastQC
3.7 years ago by Kumar ▴ 170
1
vote
18
replies
1.5k
views
How to analyze Exome Seq data for GWAS
genome next-gen Exome GWAS
updated 3.8 years ago by 88k • written 3.8 years ago by ▴ 170
5
votes
18
replies
3.4k
views
6 follow
Error while adding gene names
rna-seq next-gen genome
updated 3.8 years ago by 15k • written 3.8 years ago by ▴ 170
79 results • Page 1 of 2
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