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HIFIS Software Spotlights

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1-12 of 33

ComplexHeatmap

Complex heatmaps are efficient in visualizing associations between different sources of data sets and revealing potential patterns. Here the ComplexHeatmap package provides a highly flexible way to arrange multiple heatmaps and supports various annotation graphics.

bioconductor
Clustering
Data Science
+ 3

7749

circlize

Circular layout is an efficient way for the visualization of huge amounts of information. The circlize package provides an implementation of circular layout generation in R.

Data analysis
Data Science
Data Visualization
+ 3

3161

PeTrack

PeTrack (Pedestrian Tracking) automatically extracts accurate pedestrian trajectories from video recordings (calibration, recognition, tracking). Individual codes enable personalized trajectories with static information of each participant. With a stereo camera also markerless tracking is possible.

Annotation
Calibration
Computer Vision
+ 17

C++
Python
CMake
+ 2

473

DataLad

DataLad is a tool for the joint management of code, data, and their relationship, built on top of the version control systems Git & git-annex. It adapts principles of open-source software development & distribution to address challenges of data management, data sharing, & digital provenance capture.

DataLad
data managment
data sharing
+ 8

Python
Shell
Makefile
+ 4

283

EnrichedHeatmap

Enriched heatmap is a special type of heatmap which visualizes the enrichment of genomic signals on specific target regions. The EnrichedHeatmap package provides advanced solutions for normalizing genomic signals within target regions as well as offering highly customizable visualizations.

Data analysis
Data Visualization
FAIR Data
+ 2

187

simplifyEnrichment

A new clustering algorithm, "binary cut", for clustering similarity matrices of functional terms is implemeted in this package. It also provides functions for visualizing, summarizing and comparing the clusterings.

Data analysis
Data Visualization
FAIR Data
+ 3

147

InteractiveComplexHeatmap

InteractiveComplexHeatmap is an R package that converts static heatmaps produced from ComplexHeatmap package into an interactive Shiny app only with one extra line of code.

Data analysis
Data Science
Data Visualization
+ 3

R
JavaScript
CSS

122

rGREAT

GREAT is a type of functional enrichment analysis directly performed on genomic regions. This package implements the GREAT algorithm, also it supports directly interacting with the GREAT web service (the online GREAT analysis). Both analysis can be viewed by a Shiny application.

Data analysis
Data Visualization
FAIR Data
+ 3

RiboDetector

RiboDetector is designed to rapidly and accurately detect rRNA sequences from metagenomic, metatranscriptomic, and ncRNA sequencing data. It has been optimized for use with both CPUs and GPUs. It outperforms existing software by delivering 10-50x faster runtime and ~10x fewer false classifications.

Data analysis
FAIR Data
Genomics
+ 3

Python

cola

Subgroup classification is a basic task in genomic data analysis. The cola package provides a general framework for subgroup classification by consensus partitioning.

Data analysis
Data Visualization
FAIR Data
+ 3

HTML
R
C++

SpatialData framework

SpatialData is an open and interoperable data framework for ingesting, representing, processing and visualizing spatial omics datasets.

Data Visualization
FAIR Data
Multi omics
+ 3

Python
Dockerfile

HilbertCurve

Hilbert curve is a type of space-filling curves that fold one dimensional axis into a two dimensional space, but with still preserves the locality. This package aims to provide an easy and flexible way to visualize data through Hilbert curve.

Data analysis
Data Science
Data Visualization
+ 3