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recursiveCorPlot Correlation based clustering for RNA-seq data (+ ggplot corrplot-like interface - R-package: recursiveCorPlot). [66] RNAeXpress Can be run with Java GUI or command line on Mac, Windows, and Linux. It can be configured to perform read counting, feature detection or GTF comparison on mapped rnaseq data.
The Biopython project is an open-source collection of non-commercial Python tools for computational biology and bioinformatics, created by an international association of developers. [ 1 ] [ 4 ] [ 5 ] It contains classes to represent biological sequences and sequence annotations , and it is able to read and write to a variety of file formats.
Matplotlib (portmanteau of MATLAB, plot, and library [3]) is a plotting library for the Python programming language and its numerical mathematics extension NumPy. It provides an object-oriented API for embedding plots into applications using general-purpose GUI toolkits like Tkinter , wxPython , Qt , or GTK .
Meld is a visual diff and merge tool, targeted at developers. It allows users to compare two or three files or directories visually, color-coding the different lines. Meld can be used for comparing files, directories, and version controlled repositories.
Free GPL: Also a computer algebra system through interface with Maxima: Fityk: Marcin Wojdyr 2002 1.3.1 19 December 2016: $115 (1.x binaries), Free (source code and 0.x binaries) GPL: interactive graphics, scriptable, specialized in curve fitting and peak fitting, 2D only FlexPro: Weisang GmbH n/a 1991 2019 (12.0.x) 2018 Not free (commercial ...
Project Jupyter's name is a reference to the three core programming languages supported by Jupyter, which are Julia, Python and R. Its name and logo are an homage to Galileo's discovery of the moons of Jupiter, as documented in notebooks attributed to Galileo. Jupyter is financially sponsored by NumFOCUS. [1]
REAL is an efficient, accurate, and sensitive tool for aligning short reads obtained from next-generation sequencing. The programme can handle an enormous amount of single-end reads generated by the next-generation Illumina/Solexa Genome Analyzer. cREAL is a simple extension of REAL for aligning short reads obtained from next-generation ...
ggplot2 is an open-source data visualization package for the statistical programming language R.Created by Hadley Wickham in 2005, ggplot2 is an implementation of Leland Wilkinson's Grammar of Graphics—a general scheme for data visualization which breaks up graphs into semantic components such as scales and layers. ggplot2 can serve as a replacement for the base graphics in R and contains a ...