Online resources on must-read papers in evolutionary biology, for a literature club
...and J. L. Hubby. 1966. A molecular approach to the study of genic heterozygosity in natural populations. II. Amount of variation and degree of heterozygosity in natural populations of Dr...692 days ago
Must read paper and books in evolution biology !
...and J. L. Hubby. 1966. A molecular approach to the study of genic heterozygosity in natural populations. II. Amount of variation and degree of heterozygosity in natural populations of Dr...592 days ago
2360 days ago
PureCN: copy number calling and SNV classification using targeted short read sequencing
This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide variants (SNVs) by somatic status and clonality. PureCN is designed fo...2111 days ago
Apps for Busy Bioinformatics Researchers !!!
...and learning purposes. Visualize whole human genome sequencing data including small variations, copy number variations (CNVs), and loss of heterozygosity (LOH) events Quickly find va...3556 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
..., DNA Copy number including allele specific copy number and Loss of Heterozygosity (LOH), and ChIP, and methylat...am; “accurate detection of copy number alteration and loss of heterozygosity in impure and aneuploid tumor...2923 days ago
Bash script to simulate a genome !
..._upper.fasta.gz # Convert to diploid with approximately 2% heterozygosity rate, max indels=20bp # muta...omic.fna_upper.fasta.gz | \ grep -v ">"|wc -m # 140687135 # 2% heterozygosity is how many bases calc 0.02\...932 days ago
Tags: Bioinformatics, Analysis, NGS, GenomeScope, Genome, Stats, Estimate, Heterozygosity, repeat content, Statistical
2360 days ago
Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data
This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum of kmer pair coverages (CovA + CovB) to their relative coverage (CovB / (CovA + CovB)). Such an approach also allows us to analy...Tags: Smudgeplot, Inference, ploidy, heterozygosity, structure, whole, genome, sequencing, data
815 days ago
2813 days ago