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r-circular
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public |
Circular Statistics, from "Topics in circular Statistics" (2001) S. Rao Jammalamadaka and A. SenGupta, World Scientific.
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2025-04-22 |
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r-grr
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public |
Alternative implementations of some base R functions, including sort, order, and match. Functions are simplified but can be faster or have other advantages.
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2025-04-22 |
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r-dendsort
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public |
An implementation of functions to optimize ordering of nodes in a dendrogram, without affecting the meaning of the dendrogram. A dendrogram can be sorted based on the average distance of subtrees, or based on the smallest distance value. These sorting methods improve readability and interpretability of tree structure, especially for tasks such as comparison of different distance measures or linkage types and identification of tight clusters and outliers. As a result, it also introduces more meaningful reordering for a coupled heatmap visualization.
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2025-04-22 |
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judy
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public |
C library for creating and accessing sparse dynamic arrays
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2025-04-22 |
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bowtie-py
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public |
Interactive Dashboard Toolkit
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2025-04-22 |
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django-mptt
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public |
Utilities for implementing Modified Preorder Tree Traversal with your Django Models and working with trees of Model instances.
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2025-04-22 |
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sphinxcontrib-programoutput
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public |
Sphinx extension to include program output
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2025-04-22 |
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sphinxcontrib-restbuilder
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public |
Sphinx extension to output reST files.
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2025-04-22 |
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djangorestframework-jwt
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public |
JSON Web Token Authentication support for Django REST Framework
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2025-04-22 |
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django-js-asset
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public |
Script tag with additional attributes for django.forms.Media.
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2025-04-22 |
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fswatch
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public |
"A cross-platform file change monitor with multiple backends: Apple OS X
File System Events, *BSD kqueue, Solaris/Illumos File Events Notification,
Linux inotify, Microsoft Windows and a stat()-based backend."
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2025-04-22 |
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pyuv
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public |
pyuv is a Python module which provides an interface to libuv.
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2025-04-22 |
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django-cruds-adminlte
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public |
django-cruds is simple drop-in django app that creates CRUD for faster prototyping
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2025-04-22 |
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python-patch
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public |
Cross-platform alternative to unix patch utility capable to apply unified diffs
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2025-04-22 |
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python-node-semver
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public |
port of node-semver
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2025-04-22 |
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jupyternotify
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public |
A Jupyter Notebook magic for browser notifications of cell completion
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2025-04-22 |
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pyexodus
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public |
Create Exodus files with Python
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2025-04-22 |
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aenum
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public |
Advanced Enumerations (compatible with Python's stdlib Enum), NamedTuples,
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2025-04-22 |
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r-rcsdp
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public |
R interface to the CSDP semidefinite programming library. Installs version 6.1.1 of CSDP from the COIN-OR website if required. An existing installation of CSDP may be used by passing the proper configure arguments to the installation command. See the INSTALL file for further details.
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2025-04-22 |
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r-snpassoc
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public |
This package carries out most common analysis when performing whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented. Max-statistic and genetic risk-allele score exact distributions are also possible to be estimated.
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2025-04-22 |
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r-smatr
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public |
Methods for fitting bivariate lines in allometry using the major axis (MA) or standardised major axis (SMA), and for making inferences about such lines. The available methods of inference include confidence intervals and one-sample tests for slope and elevation, testing for a common slope or elevation amongst several allometric lines, constructing a confidence interval for a common slope or elevation, and testing for no shift along a common axis, amongst several samples. See Warton et al. 2012 <doi:10.1111/j.2041-210X.2011.00153.x> for methods description.
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2025-04-22 |
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r-cnogpro
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public |
Methods for assigning copy number states and breakpoints in resequencing experiments of prokaryotic organisms.
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2025-04-22 |
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r-alakazam
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public |
Provides methods for high-throughput adaptive immune receptor repertoire sequencing (AIRR-Seq; Rep-Seq) analysis. In particular, immunoglobulin (Ig) sequence lineage reconstruction, lineage topology analysis, diversity profiling, amino acid property analysis and gene usage. Citations: Gupta and Vander Heiden, et al (2017) <doi:10.1093/bioinformatics/btv359>, Stern, Yaari and Vander Heiden, et al (2014) <doi:10.1126/scitranslmed.3008879>.
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2025-04-22 |
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r-solarius
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public |
SOLAR is the standard software program to perform linkage and association mappings of the quantitative trait loci (QTLs) in pedigrees of arbitrary size and complexity. This package allows the user to exploit the variance component methods implemented in SOLAR. It automates such routine operations as formatting pedigree and phenotype data. It also parses the model output and contains summary and plotting functions for exploration of the results. In addition, solarius enables parallel computing of the linkage and association analyses, that makes the calculation of genome-wide scans more efficient. See <http
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2025-04-22 |
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r-ic10trainingdata
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public |
Training datasets for iC10; which implements the classifier described in the paper 'Genome-driven integrated classification of breast cancer validated in over 7,500 samples' (Ali HR et al., Genome Biology 2014). It uses copy number and/or expression form breast cancer data, trains a pamr classifier (Tibshirani et al.) with the features available and predicts the iC10 group. Genomic annotation for the training dataset has been obtained from Mark Dunning's lluminaHumanv3.db package.
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2025-04-22 |
