R-universe search: foci

Showing 6 of total 6 results (show query)

monaazadkia

FOCI:Feature Ordering by Conditional Independence

Feature Ordering by Conditional Independence (FOCI) is a variable selection algorithm based on the measure of conditional dependence. For more information, see the paper: Azadkia and Chatterjee (2019),"A simple measure of conditional dependence" <arXiv:1910.12327>.

Maintained by Mona Azadkia. Last updated 4 years ago.

66.2 match 4 stars 4.32 score 22 scripts 4 dependents

biogenies

countfitteR:Comprehensive Automatized Evaluation of Distribution Models for Count Data

A large number of measurements generate count data. This is a statistical data type that only assumes non-negative integer values and is generated by counting. Typically, counting data can be found in biomedical applications, such as the analysis of DNA double-strand breaks. The number of DNA double-strand breaks can be counted in individual cells using various bioanalytical methods. For diagnostic applications, it is relevant to record the distribution of the number data in order to determine their biomedical significance (Roediger, S. et al., 2018. Journal of Laboratory and Precision Medicine. <doi:10.21037/jlpm.2018.04.10>). The software offers functions for a comprehensive automated evaluation of distribution models of count data. In addition to programmatic interaction, a graphical user interface (web server) is included, which enables fast and interactive data-scientific analyses. The user is supported in selecting the most suitable counting distribution for his own data set.

Maintained by Jaroslaw Chilimoniuk. Last updated 2 years ago.

cancer cancer-imaging-research count-data count-distribution foci

11.0 match 4 stars 5.33 score 27 scripts

bioc

katdetectr:Detection, Characterization and Visualization of Kataegis in Sequencing Data

Kataegis refers to the occurrence of regional hypermutation and is a phenomenon observed in a wide range of malignancies. Using changepoint detection katdetectr aims to identify putative kataegis foci from common data-formats housing genomic variants. Katdetectr has shown to be a robust package for the detection, characterization and visualization of kataegis.

Maintained by Daan Hazelaar. Last updated 5 months ago.

wholegenome software snp sequencing classification variantannotation

6.6 match 5 stars 5.18 score 4 scripts

wjbraun

DAAG:Data Analysis and Graphics Data and Functions

Functions and data sets used in examples and exercises in the text Maindonald, J.H. and Braun, W.J. (2003, 2007, 2010) "Data Analysis and Graphics Using R", and in an upcoming Maindonald, Braun, and Andrews text that builds on this earlier text.

Maintained by W. John Braun. Last updated 11 months ago.

3.6 match 8.25 score 1.2k scripts 1 dependents

bioc

synapsis:An R package to automate the analysis of double-strand break repair during meiosis

Synapsis is a Bioconductor software package for automated (unbiased and reproducible) analysis of meiotic immunofluorescence datasets. The primary functions of the software can i) identify cells in meiotic prophase that are labelled by a synaptonemal complex axis or central element protein, ii) isolate individual synaptonemal complexes and measure their physical length, iii) quantify foci and co-localise them with synaptonemal complexes, iv) measure interference between synaptonemal complex-associated foci. The software has applications that extend to multiple species and to the analysis of other proteins that label meiotic prophase chromosomes. The software converts meiotic immunofluorescence images into R data frames that are compatible with machine learning methods. Given a set of microscopy images of meiotic spread slides, synapsis crops images around individual single cells, counts colocalising foci on strands on a per cell basis, and measures the distance between foci on any given strand.

Maintained by Lucy McNeill. Last updated 5 months ago.

software singlecell

4.0 match 4.00 score 2 scripts

matloff

qeML:Quick and Easy Machine Learning Tools

The letters 'qe' in the package title stand for "quick and easy," alluding to the convenience goal of the package. We bring together a variety of machine learning (ML) tools from standard R packages, providing wrappers with a simple, convenient, and uniform interface.

Maintained by Norm Matloff. Last updated 26 days ago.

1.2 match 41 stars 8.41 score 48 scripts 1 dependents