Showing 10 of total 10 results (show query)
kwstat
corrgram:Plot a Correlogram
Calculates correlation of variables and displays the results graphically. Included panel functions can display points, shading, ellipses, and correlation values with confidence intervals. See Friendly (2002) <doi:10.1198/000313002533>.
Maintained by Kevin Wright. Last updated 9 months ago.
18 stars 10.93 score 1.3k scripts 3 dependents
youyifong
kyotil:Utility Functions for Statistical Analysis Report Generation and Monte Carlo Studies
Helper functions for creating formatted summary of regression models, writing publication-ready tables to latex files, and running Monte Carlo experiments.
Maintained by Youyi Fong. Last updated 21 days ago.
7.87 score 236 scripts 7 dependents
bioc
debrowser:Interactive Differential Expresion Analysis Browser
Bioinformatics platform containing interactive plots and tables for differential gene and region expression studies. Allows visualizing expression data much more deeply in an interactive and faster way. By changing the parameters, users can easily discover different parts of the data that like never have been done before. Manually creating and looking these plots takes time. With DEBrowser users can prepare plots without writing any code. Differential expression, PCA and clustering analysis are made on site and the results are shown in various plots such as scatter, bar, box, volcano, ma plots and Heatmaps.
Maintained by Alper Kucukural. Last updated 5 months ago.
sequencingchipseqrnaseqdifferentialexpressiongeneexpressionclusteringimmunooncology
61 stars 7.80 score 65 scripts
sciviews
SciViews:'SciViews' - Data Processing and Visualization with the 'SciViews::R' Dialect
The 'SciViews::R' dialect provides a set of functions that streamlines data input, process, analysis and visualization especially, but not exclusively, for beginners or occasional users. It mixes base R and tidyverse, plus another set of CRAN packages for an easy and coherent use of R.
Maintained by Philippe Grosjean. Last updated 7 months ago.
8 stars 7.62 score 116 scripts 1 dependentsbioc
SingleMoleculeFootprinting:Analysis tools for Single Molecule Footprinting (SMF) data
SingleMoleculeFootprinting provides functions to analyze Single Molecule Footprinting (SMF) data. Following the workflow exemplified in its vignette, the user will be able to perform basic data analysis of SMF data with minimal coding effort. Starting from an aligned bam file, we show how to perform quality controls over sequencing libraries, extract methylation information at the single molecule level accounting for the two possible kind of SMF experiments (single enzyme or double enzyme), classify single molecules based on their patterns of molecular occupancy, plot SMF information at a given genomic location.
Maintained by Guido Barzaghi. Last updated 5 days ago.
dnamethylationcoveragenucleosomepositioningdatarepresentationepigeneticsmethylseqqualitycontrolsequencing
2 stars 6.46 score 27 scriptsbioc
ABarray:Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data.
Automated pipline to perform gene expression analysis for Applied Biosystems Genome Survey Microarray (AB1700) data format. Functions include data preprocessing, filtering, control probe analysis, statistical analysis in one single function. A GUI interface is also provided. The raw data, processed data, graphics output and statistical results are organized into folders according to the analysis settings used.
Maintained by Yongming Andrew Sun. Last updated 5 months ago.
microarrayonechannelpreprocessing
4.20 score 3 scripts
haddonm
MQMF:Modelling and Quantitative Methods in Fisheries
Complements the book "Using R for Modelling and Quantitative Methods in Fisheries" ISBN 9780367469894, published in 2021 by Chapman & Hall in their "Using R series". There are numerous functions and data-sets that are used in the book's many practical examples.
Maintained by Malcolm Haddon. Last updated 2 years ago.
ecologyfisherieshaddonquantitative-methodsuncertainty
11 stars 4.14 score 25 scripts
daijiang
lirrr:Functions collected/wrote by Daijiang Li
To keep all my functions in one place, and to use them more easily.
Maintained by Daijiang Li. Last updated 1 years ago.
1 stars 1.70 score 3 scripts
z0on
KOGMWU:Functional Summary and Meta-Analysis of Gene Expression Data
Rank-based tests for enrichment of KOG (euKaryotic Orthologous Groups) classes with up- or down-regulated genes based on a continuous measure. The meta-analysis is based on correlation of KOG delta-ranks across datasets (delta-rank is the difference between mean rank of genes belonging to a KOG class and mean rank of all other genes). With binary measure (1 or 0 to indicate significant and non-significant genes), one-tailed Fisher's exact test for over-representation of each KOG class among significant genes will be performed.
Maintained by Mikhail V. Matz. Last updated 6 years ago.
1.20 score 16 scripts