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Our basic strategy in building homology maps is to use exons that are orthologous in multiple genomes as map "anchors." Given K genomes, the steps in the map constructio...2657 days ago
- Simple ideogram plotting and annotation in R. Basic usage: Rscript Ideoplot.R --heatmap hm.bed --annotate annotations.bed --out ideogram.pdf -or- Rscript Ideoplot.R --annotate anno...
2650 days ago
MOSS: A System for Detecting Software Similarity
...orithms (at least, over those known to us). Moss can currently analyze code written in the following languages: C, C++, Java, C#, Python, Visual Basic, Javascript, FORTRAN, ML, Has...2351 days ago
CrocoBLAST: Optimized parallel implementation of local sequence alignment algorithms
...of bioinformatics, allowing to compare the amino-acid sequences of different proteins, or the nucleotide sequences of different pieces of DNA. The Basic Local Alignment Search Tool (...2488 days ago
- ...rameters, run the tool’s shellscript or open it with a text editor. Most tools do not currently have a guide, but each has shellscripts with basic usage information. The &ldquo...
2349 days ago
Biological file format tutorial
This section explains some of the commonly used file formats in bioinformatics. The information provided here is basic and designed to help users to distinguish the difference betwee...2342 days ago
MITObim - mitochondrial baiting and iterative mapping
...TObim supports in principle also data from the Iontorrent, 454 and PacBio sequencing platforms. Below you can find a few basic tutorials for how to run MITO...2201 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
...Gene/Construction refers to the combination of classical gene prediction, and more recent gene assembly (de-novo and genome-assisted) methods. The basic Evigene methods involve using...2201 days ago
- BLASR (Basic Local Alignment with Successive Refinement) for mapping Single Molecule Sequencing (SMS) reads that are thousands to tens of thousands of bases long with dive...
2186 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
...SOAPaligner is that it now supports a wide range of the read length. SOAPaligner benefitted in time and space efficiency by a revolution in the basic data structures and algorithm...2186 days ago
