Results for "Genome Biology"
Top-level pages
Quick next generation sequencing (NGS) terms definition
fragment size: the Illumina WGS protocol generates paired-end reads from both ends...concordant if they can be mapped to the reference genome as “expected”: (a...sp;a read that can only be mapped to the reference genome...2538 days ago
Phylogenetic & Molecular Genetics Terms and Definitions
analog -- A feature that appears similar in two taxa whic...ter states is the best. phylogenetics -- Field of biology that deals with the relations...order is conserved. systematics -- Field of biology that deals with the diversity...2477 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
...SNPs (dbSNP and Affymetrix's Genome-Wide Human SNP Array) from ra...., ONT or PacBio reads, draft genomes) Software (Perl) https://g...ol for MLST directly from the genome sequencing reads Software (Python) http://jordan.biology.gatech.edu/page/software/stri...2386 days ago
- When you have both Illumina and Nanopore data, then SPAdes remains a good option for hybrid assembly - SPAdes was u...pades.py will show you the options: spades.py This produces: SPAdes genome...
2366 days ago
Single Cell RNAseq data analysis tutorial !!
A major breakthrough (replaced microarrays) in the late 00’s and has been widely used since Measures the&n...es and reveal cell-type-specific expression changes in type 2 diabetes http://genome....2366 days ago
Tools for bacterial whole genome annotation
RAST – Web tool (upload contigs), uses the subsyst...ation (if you have only a few genomes to annotate). Prokka &...y useful if you have loads of genomes or need to annotate a pangen..., as well as other functional genome units such as structural RNAs...2347 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once, and determine which genome they match best. This is different than with ordinary mapping. If a genome...2330 days ago
List of visualization tools for network biology
Network analysis is any structured technique used to...ochastic simulation software http://magnet.systemsbiology.net/software/Dizzy/ DyCoNet...s (SBML files) into standardized diagrams (Systems Biology Graphical Notation Process De...2303 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for showing final results bu...need publication ready figure of genomes. Following are the list of genome alignment visualization tools...ation information of a reference genome http://bioinformatics.zj.cn/...and visualizing sequenced human genomes...2299 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
The purpose of this cheat sheet is to introduce biologist and bioinformatician to the frequently used tools for NGS analysis as well as giving experience in writing one...2296 days ago
