NanoSim: nanopore sequence read simulator based on statistical characterization.
NanoSim, a fast and scalable read simulator that captures the technology-specific features of ONT data and allows f...to produce in silico reads for a given reference genome. NanoSim is written in Python...2327 days ago
snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snakemake that simplify the analysis of NGS data. DNA-mapping* ChIP-seq* RNA-seq* ATAC-seq*...1799 days ago
xmatchview: smith-waterman alignment visualization
xmatchview and xmatchview-conifer are imaging tools for comparing the synteny between DNA sequences. It allows user...n a variety of image formats. xmatchview and xmatchview-conifer are written in python...2317 days ago
CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
CAMSA – is a tool for Comparative Analysis and Merging of Scaffold Assemblies, distributed both as a standalone software package and as Python...2317 days ago
Frontend: Perl Web framework documentation - Andrej Sali Lab
The frontend is a set of Perl classes that displays the web interface, allowing a user to upload their input files, start a job, display a list of all jobs in the system, and get back...2305 days ago
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ALPHA: A Toolkit for Automated Local Phylogenomic Analyses
Automated Local Phylogenomic Analyses, or ALPHA, is a python-based application that provides an intuitive user interface for phylogenetic analyses and data visualization. It has fo...2233 days ago
DendroPy: a Python library for phylogenetic computing
DendroPy is a Python library for phylogenetic computing. It provides classes and functions for the simulation, processing, and m...ndropy.org/ DendroPy is also hosted in the official Python repository: http://packages.python.org/DendroPy/ Requirements...2201 days ago
SALSA: A tool to scaffold long read assemblies with Hi-C
This code is used to scaffold your assemblies using Hi-C data. This version implements some improvements in the ori...the following commands: cd SALSA make To run the code, you will need Python...2148 days ago