Results for "Bonobo and Neandertal genome sequencing"
Blogs
Protocol for De novo Genome Assembly using Illumina Reads
...hod for small to medium-sized genomes. What is de novo genome assembly?The method of tak...p into millions of tiny parts and read on a sequencing computer in a genome sequencing experiment. Depending on...ew/42542/trimmomatic-command Genome Assembly:The object of this porti...1213 days ago
Ancient whole genome duplication (WGD) detection tools !
There are two methods for ancient WGD detection, one is collinearity analysis, and the other is based on the Ks...ontaneum L as an example. The genome is 8-ploid with 32 chromosome...Download the tutorial for CDS and GFF annotation files mkdir -p...analysis viz: draw histogram and densit...1164 days ago
Frequently used bioinformatics tools for viral genome analysis !
IVA: accurate de novo assembly of RNA virus genomes. Hunt M, Gall A, Ong SH,...AGE: A critical evaluation of genome assemblies and assembly algorithms. Salzberg, S. L. et al. Genome Res. 22, 557-67 (2012). KMC:...Sequence Alignment/Map format and SAMtools. Li, H. et al. Bioinformati...1055 days ago
Illumina based assembly pipeline steps !
Illumina Merge re-sequenced FastQ files (cat) Read QC (Fast...ad alignment (Bowtie 2) Sort and index alignments (SAMtools)...-level QC (picard, SAMtools) Genome-wide and amplicon coverage QC plots (mosd...assignment, mutation calling and sequence quality checks (Nextcla...885 days ago
Useful Bioinformatics Analysis Tools !
CoMeta Classificier of reads from metagenomic sequencing experiments. •&n...icz, S., KMC 3: counting and manipulating k -mer statistics, ...M Experimental compressor of sequencing reads. • Gra...Compressor of collections of genomes given in Variant Call Format (VC...872 days ago
List of comparative genomics resources !
3D-GENOMICS -- A Database to Compare Structural and Functional Annotations of Proteins between Sequenced Genomes Compare structural and functional annotations of proteins between sequenced genomes. ARED Organism -- ex...phila species genomes Search and compare 12 new and old Drosophil...685 days ago
Online resources on must-read papers in evolutionary biology, for a literature club
...m et al. 2001. A map of human genome sequence variation contai...et. Res. 23: 23-35. Understanding sequence variation 1. Beg...2010 A draft sequence of the Neandertal genome. Science 328: 710-722. Qua...f the Neutral Theory in 1968 and 50 years on: a response to Kern...685 days ago
Must read paper and books in evolution biology !
...m et al. 2001. A map of human genome sequence variation contai...et. Res. 23: 23-35. Understanding sequence variation 1. Beg...2010 A draft sequence of the Neandertal genome. Science 328: 710-722. Qua...f the Neutral Theory in 1968 and 50 years on: a response to Kern...586 days ago
Interesting Bioinformatics Resources !
...e research 2. Parallel sequencing lives, or what makes large sequencing...w with R Markdown, Git, Make, and Docker https://psyarxiv.com...Dr.Keith A. Baggerly from MD Anderson [The Importance of Reproducible...ork reproducibly https://genomebiology.biomedcentral.com/articles...549 days ago
Chromosome breakpoint - a breakup to remember
Chromosome breakpoint refers to the physica...where a chromosome is broken and rearranged. Chromosome breaka...in situ hybridization (FISH), and molecular methods such as pol...ion (PCR) and next-generation sequencing...ts, depending on the location and size of the duplicated segment. Chr...433 days ago
