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r-phylogic
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public |
Phylogenetic analysis of subclones across multiple cancer-tissue samples.
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2023-06-16 |
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azcopy
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public |
AzCopy is a command-line utility designed for copying data to/from Microsoft Azure Blob and File storage, using simple commands designed for optimal performance.
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2023-06-16 |
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titancna
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public |
Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer.
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2023-06-16 |
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sports1.0
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public |
Small non-coding RNA annotation Pipeline Optimized for rRNA- and tRNA-Derived Small RNAs.
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2023-06-16 |
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sandstone-spawner
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public |
JupyterHub Spawner class for starting Sandstone HPC user instances.
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2023-06-16 |
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batchspawner
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public |
This is modified batchspawner for Jupyterhub on HCC resources.
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2023-06-16 |
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sandstone-jupyterhub-login
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public |
This is modified JupyterHub multi-user spawner for Sandstone IDE on HCC resources.
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2023-06-16 |
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jupyter-duoauthenticator
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public |
Simple Duo Authenticator Plugin for JupyterHub.
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2023-06-16 |
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sandstone-slurm-assist
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public |
This is modified Slurm scheduler assist app for Sandstone IDE on HCC resources.
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2023-06-16 |
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duo_python
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public |
Duo two-factor authentication for Python web applications.
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2023-06-16 |
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wrapspawner
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public |
Mechanism for runtime configuration of spawners for JupyterHub.
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2023-06-16 |
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sandstone-ide
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public |
This is modified Sandstone IDE for HCC resources.
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2023-06-16 |
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hcc-du
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public |
HCC utility to query quota and file purge status.
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2023-06-16 |
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bitmath
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public |
Pythonic module for representing and manipulating file sizes with different prefix notations (file size unit conversion).
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2023-06-16 |
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simplepam
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public |
An interface to the Pluggable Authentication Modules (PAM) library on linux, written in pure python (using ctypes).
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2023-06-16 |
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lyve-set
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public |
LYVE version of the Snp Extraction Tool (SET), a method of using hqSNPs to create a phylogeny.
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2023-06-16 |
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mni-n3
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public |
A non-parametric method for correction of intensity non-uniformity in MRI data.
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2023-06-16 |
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lyve-set-cg-pipeline
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public |
Genome assembly/prediction/annotation pipeline for the Linux command line
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2023-06-16 |
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perl-getopt-tabular
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public |
table-driven argument parsing for Perl 5
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2023-06-16 |
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perl-schedule-sgelk
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public |
Perl module for scheduling tasks, with only using qsub/qstat/qdel.
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2023-06-16 |
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perl-mni
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public |
The MNI Perl Library is a collection of Perl modules originally designed to help writing glorified shell scripts -- that is, programs that (mainly) run other programs.
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2023-06-16 |
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perl-graph-centrality-pagerank
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public |
Computes pagerank of all nodes in a graph.
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2023-06-16 |
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perl-array-intspan
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public |
Handles arrays of scalars or objects using integer ranges
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2023-06-16 |
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perl-statistics-linefit
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public |
Least squares line fit, weighted or unweighted
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2023-06-16 |
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ebtks
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public |
EBTKS - stands for Everything But The Kitchen Sink - is Alex Zijdenbos library of numerical types and algorithms, and is needed by classify and inormalize.
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2023-06-16 |
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boltztrap2
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public |
BoltzTraP2 is a modern implementation of the smoothed Fourier interpolation algorithm for electronic bands that formed the base of the original and widely used BoltzTraP code.
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2023-06-16 |
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r-udpipe
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public |
This natural language processing toolkit provides language-agnostic 'tokenization', 'parts of speech tagging', 'lemmatization' and 'dependency parsing' of raw text. Next to text parsing, the package also allows you to train annotation models based on data of 'treebanks' in 'CoNLL-U' format as provided at <http://universaldependencies.org/format.html>. The techniques are explained in detail in the paper: 'Tokenizing, POS Tagging, Lemmatizing and Parsing UD 2.0 with UDPipe', available at <doi:10.18653/v1/K17-3009>.
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2023-06-16 |
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pyemto
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public |
Easily generate input files and corresponding batch scripts for the EMTO (Exact Muffin-Tin Orbitals) solid-state physics software.
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2023-06-16 |
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pymatgen
|
public |
Python Materials Genomics is a robust materials analysis code that defines core object representations for structures and molecules with support for many electronic structure codes.
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2023-06-16 |
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cif2cell-python3
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public |
CIF2Cell is a tool to generate the geometrical setup for various electronic structure codes from a CIF (Crystallographic Information Framework) file.
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2023-06-16 |
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llvm-dynlib
|
public |
The LLVM Compiler Infrastructure
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2023-06-16 |
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ima3
|
public |
IMa3 provides for estimation of the posterior probability of the population phylogenetic topology by using a new kind of data augmentation called a 'hidden genealogy'.
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2023-06-16 |
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dm-sonnet-gpu
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public |
Sonnet is a library built on top of TensorFlow for building complex neural networks.
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2023-06-16 |
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tensorflow-probability
|
public |
TensorFlow Probability is a library for probabilistic reasoning and statistical analysis.
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2023-06-16 |
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cuda_driver
|
public |
NVIDIA linux driver
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2023-06-16 |
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gurobi-python
|
public |
The Gurobi Optimizer is the state-of-the-art math programming solver able to handle all major problem types.
|
2023-06-16 |
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plink2
|
public |
This is a comprehensive update to Shaun Purcell's PLINK command-line program, developed by Christopher Chang with support from the NIH-NIDDK's Laboratory of Biological Modeling, the Purcell Lab at Mount Sinai School of Medicine, and others.
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2023-06-16 |
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mlpack
|
public |
mlpack a fast, flexible machine learning library
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2023-06-16 |
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rclone
|
public |
Rclone - rsync for cloud storage.
|
2023-06-16 |
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doom-py
|
public |
Python wrappers for ViZDoom. Contains a modified version of the bleeding-edge ViZDoom source code.
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2023-06-16 |
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seqtk
|
public |
This is modified Seqtk version required for FusionCatcher.
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2023-06-16 |
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neper
|
public |
Neper is a software package for polycrystal generation and meshing.
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2023-06-16 |
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armadillo
|
public |
Armadillo C++ linear algebra library
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2023-06-16 |
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libmatheval
|
public |
GNU libmatheval is a library (callable from C and Fortran) to parse and evaluate symbolic expressions input as text.
|
2023-06-16 |
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gensel
|
public |
Genomic selection and GWAS analysis for linear and categorical traits.
|
2023-06-16 |
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guile
|
public |
Guile is designed to help programmers create flexible applications that can be extended by users or other programmers with plug-ins, modules, or scripts.
|
2023-06-16 |
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libgc
|
public |
The Boehm-Demers-Weiser conservative garbage collector can be used as a garbage collecting replacement for C malloc or C++ new.
|
2023-06-16 |
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project-lazarus
|
public |
Lazarus is a collection of Python scripts for running the programs codeml and baseml in the PAML software suite.
|
2023-06-16 |
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mro-tidyverse
|
public |
The 'tidyverse' is a set of packages that work in harmony because they share common data representations and 'API' design. This package is designed to make it easy to install and load multiple 'tidyverse' packages in a single step. Learn more about the 'tidyverse' at <https://tidyverse.org>.
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2023-06-16 |
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selecton
|
public |
Selecton 2007: advanced models for detecting positive and purifying selection using a Bayesian inference approach.
|
2023-06-16 |
