Results for "genome structure"
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 taking...e source DNA sequence length, structure or composition is inferred...ew/42542/trimmomatic-command Genome Assembly:The object of this p...genomes from read mappings. Genome finishing tools:Semi-automated g...1259 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...miniconda3/envs/wgd/make -j 4 make insatall Take the sugarcane genome Saccharum spontaneum L as an example. The genome is...1210 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, Brener J, Ferns B, Gou...-1 (2012). GAGE: GAGE: A critical evaluation of genome assemblies and assembly algorithms. Salzberg, S. L. et al. Genome Re...1102 days ago
Basic Structure of Snakemake Pipeline Run !
/user/snakemake-demo$ ls config.json data envs scripts slurm-240702.out Snakefile data = mock data for the snakefile to use Snakefile = name of the snakemake &ldquo...989 days ago
Illumina based assembly pipeline steps !
Illumina Merge re-sequenced FastQ files (cat) Read QC (FastQC) Adapter trimming (f...optional) Alignment-level QC (picard, SAMtools) Genome-wide and amplicon coverage QC...l variant screenshots with annotation tracks (ASCIIGenome)...932 days ago
Useful Bioinformatics Analysis Tools !
CoMeta Classificier of reads from metagenomic sequencing experime...CoMeta: Classification of Metagenomes Using k-mers, PLOS ONE,...Compressor of collections of genome sequences. • ...obust relative compression of genomes with random access, Bio...918 days ago
List of comparative genomics resources !
3D-GENOMICS -- A Database to Compare Structural and Functional A...species. BGDB -- Bovine Genome Database Find information ab...struction Tool Based on Whole Genomes Construct phylogenetic tree...risons of Multiple Vertebrate Genomes Access to whole genome alig...732 days ago
Online resources on must-read papers in evolutionary biology, for a literature club
1. *Nick Barton:* - The textbook "Evolution" by Nick Barton, with resources fo...09. 1b. Sachidandam et al. 2001. A map of human genome sequence variation containin...ml;bo S., 2010 A draft sequence of the Neandertal genome. S...732 days ago
Must read paper and books in evolution biology !
1. *Nick Barton:* - The textbook "Evolution" by Nick Barton, with resources fo...09. 1b. Sachidandam et al. 2001. A map of human genome sequence variation containin...ml;bo S., 2010 A draft sequence of the Neandertal genome. S...632 days ago
- DeepMind’s artificial intelligence system AlphaFold2, predicts the 3D structure of a protein based on its amino...
593 days ago
