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perl-math-vecstat
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public |
Some basic numeric stats on vectors
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2023-06-16 |
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r-rwave
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public |
A set of R functions which provide an environment for the Time-Frequency analysis of 1-D signals (and especially for the wavelet and Gabor transforms of noisy signals). It was originally written for Splus by Rene Carmona, Bruno Torresani, and Wen L. Hwang, first at the University of California at Irvine and then at Princeton University. Credit should also be given to Andrea Wang whose functions on the dyadic wavelet transform are included. Rwave is based on the book: "Practical Time-Frequency Analysis: Gabor and Wavelet Transforms with an Implementation in S", by Rene Carmona, Wen L. Hwang and Bruno Torresani, Academic Press, 1998.
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2023-06-16 |
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perl-path-class
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public |
Cross-platform path specification manipulation
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2023-06-16 |
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perl-mailtools
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public |
Various e-mail related modules
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2023-06-16 |
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perl-lwp-mediatypes
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public |
guess media type for a file or a URL
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2023-06-16 |
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perl-params-util
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public |
Simple, compact and correct param-checking functions
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2023-06-16 |
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perl-postscript
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public |
helper module for PostScript::TextBlock
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2023-06-16 |
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prosic
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public |
A highly sensitive and accurate Bayesian caller for somatic insertions and deletions.
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2023-06-16 |
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perl-math-base-convert
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public |
very fast base to base conversion
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2023-06-16 |
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perl-io-html
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public |
Open an HTML file with automatic charset detection
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2023-06-16 |
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lefse
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public |
LDA Effect Size (LEfSe) (Segata et. al 2010) is an algorithm for high-dimensional biomarker discovery and explanation that identifies genomic features (genes, pathways, or taxa) characterizing the differences between two or more biological conditions.
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2023-06-16 |
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perl-path-tiny
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public |
File path utility
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2023-06-16 |
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perl-jcode
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public |
Japanese Charset Handler
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2023-06-16 |
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perl-html-tidy
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public |
(X)HTML validation in a Perl object
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2023-06-16 |
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perl-mozilla-ca
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public |
Mozilla's CA cert bundle in PEM format
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2023-06-16 |
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perl-ipc-run
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public |
system() and background procs w/ piping, redirs, ptys (Unix, Win32)
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2023-06-16 |
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perl-io-tty
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public |
Pseudo ttys and constants
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2023-06-16 |
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perl-mime-types
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public |
Definition of MIME types
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2023-06-16 |
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perl-html-tagset
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public |
data tables useful in parsing HTML
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2023-06-16 |
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c-ares
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public |
c-ares is a C library for asynchronous DNS requests (including name resolves)
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2023-06-16 |
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pilon
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public |
Pilon is an automated genome assembly improvement and variant detection tool.
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2023-06-16 |
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r-rmarkdown
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public |
Convert R Markdown documents into a variety of formats.
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2023-06-16 |
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aria2
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public |
aria2 is a lightweight multi-protocol & multi-source, cross platform download utility operated in command-line. It supports HTTP/HTTPS, FTP, SFTP, BitTorrent and Metalink.
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2023-06-16 |
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graphlite
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public |
embedded graph datastore
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2023-06-16 |
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ucsc-checkhgfindspec
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public |
test and describe search specs in hgFindSpec tables.
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2023-06-16 |
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bioepic
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public |
Chip-Seq broad peak/domain finder.
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2023-06-16 |
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deap
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public |
Distributed Evolutionary Algorithms in Python
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2023-06-16 |
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r-preseqr
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public |
Estimating the number of species represented r or more times in a random sample.
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2023-06-16 |
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cmfinder
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public |
CMfinder - A Covariance Model Based RNA Motif Finding Algorithm
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2023-06-16 |
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r-polynom
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public |
A collection of functions to implement a class for univariate polynomial manipulations.
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2023-06-16 |
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amos
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public |
A Modular, Open-Source whole genome assembler
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2023-06-16 |
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r-gsubfn
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public |
gsubfn is like gsub but can take a replacement function or certain other objects instead of the replacement string. Matches and back references are input to the replacement function and replaced by the function output. gsubfn can be used to split strings based on content rather than delimiters and for quasi-perl-style string interpolation. The package also has facilities for translating formulas to functions and allowing such formulas in function calls instead of functions. This can be used with R functions such as apply, sapply, lapply, optim, integrate, xyplot, Filter and any other function that expects another function as an input argument or functions like cat or sql calls that may involve strings where substitution is desirable.
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2023-06-16 |
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scoop
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public |
Scalable COncurrent Operations in Python
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2023-06-16 |
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r-argparse
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public |
A command line parser to be used with Rscript to write "#!" shebang scripts that gracefully accept positional and optional arguments and automatically generate usage.
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2023-06-16 |
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vcftoolbox
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public |
Tools for manipulating and parsing vcf files
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2023-06-16 |
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grep
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public |
Grep searches one or more input files for lines containing a match to a specified pattern
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2023-06-16 |
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mgltools
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public |
MGLTools is an program for visualization and analisys of molecular structures.
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2023-06-16 |
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r-testthat
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public |
A unit testing system designed to be fun, flexible and easy to set up.
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2023-06-16 |
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tqdm
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public |
A Fast, Extensible Progress Meter
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2023-06-16 |
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zifa
|
public |
Dimensionality reduction for zero-inflated single-cell gene expression analysis
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2023-06-16 |
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cgcloud-lib
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public |
Components shared between cgcloud-core and cgcloud-agent
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2023-06-16 |
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coreutils
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public |
The GNU Core Utilities are the basic file, shell and text manipulation utilities of the GNU operating system. These are the core utilities which are expected to exist on every operating system.
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2023-06-16 |
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r-pmcmr
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public |
The Kruskal and Wallis one-way analysis of variance by ranks or van der Waerden's normal score test can be employed, if the data do not meet the assumptions for one-way ANOVA. Provided that significant differences were detected by the omnibus test, one may be interested in applying post-hoc tests for pairwise multiple comparisons (such as Nemenyi's test, Dunn's test, Conover's test, van der Waerden's test). Similarly, one-way ANOVA with repeated measures that is also referred to as ANOVA with unreplicated block design can also be conducted via the Friedman-Test or the Quade-test. The consequent post-hoc pairwise multiple comparison tests according to Nemenyi, Conover and Quade are also provided in this package. Finally Durbin's test for a two-way balanced incomplete block design (BIBD) is also given in this package.
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2023-06-16 |
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r-blockmodeling
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public |
The package is primarly ment as an implementation of Generalized blockmodeling for valued networks. In addition, measurese of similarity or dissimilarity based on structural equivalence and regular equivalence (REGE algorithem) can be computed and partitioned matrices can be ploted.
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2023-06-16 |
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gnu-getopt
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public |
Command-line option parsing library
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2023-06-16 |
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spanki
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public |
Spanki is a set of tools to facilitate analysis of alternative splicing from RNA-Seq data. Spanki compiles quantitative and qualitative information about junction alignments from input BAM files, and analyzes junction-level splicing along with pairwise-defined splicing events. A simulator is also included to evaluate junction detection performance.
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2023-06-16 |
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doit
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public |
doit - Automation Tool
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2023-06-16 |
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r-ipo
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public |
The outcome of XCMS data processing strongly depends on the parameter settings. IPO ('Isotopologue Parameter Optimization') is a parameter optimization tool that is applicable for different kinds of samples and liquid chromatography coupled to high resolution mass spectrometry devices, fast and free of labeling steps. IPO uses natural, stable 13C isotopes to calculate a peak picking score. Retention time correction is optimized by minimizing the relative retention time differences within features and grouping parameters are optimized by maximizing the number of features showing exactly one peak from each injection of a pooled sample. The different parameter settings are achieved by design of experiment. The resulting scores are evaluated using response surface models.
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2023-06-16 |
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r-findpython
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public |
Package designed to find an acceptable python binary.
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2023-06-16 |
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rdkit
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public |
Open-Source Cheminformatics Software
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2023-06-16 |
