lrscaf | hybrid assembly strategy

lrscaf is a Java library typically used in Healthcare, Pharma, Life Sciences applications. lrscaf has no bugs, it has no vulnerabilities, it has build file available and it has low support. You can download it from GitHub.

hybrid assembly strategy is a reasonable and promising approach to utilize strengths and settle weaknesses in next-generation sequencing (ngs) and third-generation sequencing (tgs) technologies. according to this principle, we here present a new toolkit named lrscaf (long reads scaffolder) by applied tgs data to improve draft genome assembly. the main features are: short running time, accuracy, and being contiguity. to scaffold rice genome, it could be done in 20 mins with minimap mapper. in human, lrscaf could improve the draft assembly ng50 from 127.5 kb to 10.4 mb on 20x pacbio chm1 dataset and ng50 from 115.7 kb to 17.4 mb on ~35x nanopore na12878 dataset. lrscaf supports parameters set by xml confiuration file or command-line. it recommends to use xml configuration file. there is a template configuration file of xml format, named "scafconf.xml", in the project. in command-line, lrscaf supports long (dash-dash) and short (dash) style of gnu like options. and the following table would