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...ter properties and other indices used in population and community studies on-the-fly. Availability: RAMI is licensed under GNU GPL and can be run or downloaded from http:...2471 days ago
simNGS and simLibrary – Software for Simulating Next-Gen Sequencing Data
...tionally applied. simNGS takes fasta format sequences and a file describing the covariance of noise between bases and cycles observed in an actual run of the machine, randomly gene...2359 days ago
- ...al parameters including size, colours, order, and labels, which are specified in a config file generated by the first run of Synima – and can be subsequently edited. Synima runs quickly on a command line to...
2346 days ago
kraken: A universal genomic coordinate translator for comparative genomics
If you planning on conducting a study involving dozens of large genomes, then you do not have to run all pairwise synteny alignments .. simply try kraken: A universal genomic coordinate translator for comparative genomics2350 days ago
jobTree based python wrapper to run the genome simulation tool suite Evolver
...olution on an arbitrary phylogeny (Newick format). In addition to simply running evolver, eSC also automatically creates statistical summaries of the simulation as it runs including text and image fil...2348 days ago
- The guides describe the function, syntax, and typical use-cases of the tools; for a complete list of parameters, run the tool’s shellscript or open it with a text editor. Most...
2346 days ago
Ra assembler - a de novo DNA assembler for third generation sequencing data
...nstitute (RBI) and Genome Institute of Singapore (GIS). Ra is in development since 2014 in the form of several separate components that used to be run individually.This project aim...2329 days ago
xmatchview: smith-waterman alignment visualization
...asta format using cross_match and displays the alignment in a variety of image formats. xmatchview and xmatchview-conifer are written in python and run on linux and windows. They se...2329 days ago
Rectangle Graph for Repeat Resolution in Genome Assembly
...asing the Rectangle Graph Module (RGM) as the separate code which can be run independently of SPAdes. Alth...in SPAdes, in the future we plan to integrate RGM in SPAdes. RGM can be run with other genome assemblers...2329 days ago
HGT-Finder: A New Tool for Horizontal Gene Transfer Finding and Application to Aspergillus genomes
...ely it is to be horizontally transferred, and (iii) is fully automated (requires minimal human intervention), as well as very easy to install and run.2309 days ago
