Quick next generation sequencing (NGS) terms definition
...fragments. The lengths of these fragments are assumed to be sampled from a normal distribution. Therefore, in the absence of structural variants, mapping locations of the paired ends...2520 days ago
Phylogenetic & Molecular Genetics Terms and Definitions
...of the cladogram. expressed sequence tag (EST) -- A partial coding sequence isolated at random from a cDNA library, used for identification and mapping of coding sequences, for disc...2460 days ago
2348 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
...ch best. This is different than with ordinary mapping. If a genome (say, human) contains an exact repeat somewhere, reads mapping to it will be mapped ambiguou...e file. BBSplit is a tool that bins reads by mapping to multiple references simult...2312 days ago
List of visualization tools for network biology
...c metabolic models into a database collected from public data sources http://www.cs.helsinki.fi/group/sysfys/software/rematch/ SNOW Gene mapping on a reference or human prote...2286 days ago
List of visualization tools for genome alignments
...s http://bioapp.psych.uic.edu/DNannotator.htm JVM Java Visual Mapping tool for NGS reads http://ww...lution https://www.broadinstitute.org/igv/ ZOOM Lite NGS data mapping and visualization software h...2281 days ago
Some useful Bioinformatics links
...ly of GEnomes | BMC Bioinformatics | Full Text https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-15-302 Fast and sensitive mapping of nanopore sequencing reads...2239 days ago
Frequent Paired-end reads (PE 2x100) mapping command lines
bowtie2 -x hs37m -X 650 -q -1 r1.fq -2 r2.fq -S r12.bowtie2.sam bwa aln hs37m.fa r1.fq > r1.sai && bwa aln hs37m.fa r2.fq > r2.sai \ &&...2180 days ago
Frequent parameters for bioinformatics tools !
...g_limit 2 -perc_identity 95 blastp (VF) -culling_limit 2 RGI (ABR) --input_type contig bowtie2 (mapping) --sensitive minimap2 (mapping) -a -x map-ont sam...1283 days ago