All software

37-48 of 72

reference_set_selection_benchmark

Code underlying the publication: "Benchmarking the impact of reference genome selection on taxonomic profiling accuracy"

Genome Selection
Lineage Abundance Estimation
Sequence Clustering
+ 2

Jupyter Notebook
Markdown
Other
+ 3

Research compendium for FAIR Sharing is Caring poster

Data Sharing
FAIR data
open science
+ 1

CSS
HTML
JavaScript
+ 4

Software supporting: RNA-Seq analysis of Brassicaceae species under different irradiances

Brassicaceae
Hirschfeldia incana
photosynthesis
+ 1

Other
Python
R
+ 1

source-code-phd-dissertation

Code repository for Ph.D. dissertation "Safer Causal Inference: Theory & Algorithms for Falsification, Trial Augmentation and Policy Evaluation"

causality
computer science
Machine learning
+ 1

JSON
Jupyter Notebook
large-text-file
+ 4

TUD R Cafe Plot-a-thon: 4TU.RD stats

data visualization
plot-a-thon
Statistics

JSON
large-text-file
Markdown
+ 2

addFeatures

addFeatures adds spot images to a SCiLS Lab dataset from a list of defined mass spectral features.

Image processing
mass spectrometry

admtools

Estimate age-depth models in geology and use them to transform various types of data (fossil ages, phylogenetic trees, trait evolution of lineages) between the time domain and the stratigraphic domain.

Age-depth modeling
Geochronology
Sedimentology
+ 1

asrlitcompare

A tool written in rmarkdown for assessing the level of agreement between two raters following screening in ASReview. Users only need the two .csv files downloaded from ASReview, and the tool will automatically compile a summary report as an HTML file, viewable in your web browser.

ASReview
inter-rater reliability
literature screening
+ 1

AppleScript
Awk
Batchfile
+ 14

BridgeDbR

R package for the BridgeDb Java library making identifier mapping functionality available in the R environment.

persistent identifiers
Statistics

HTML
R
TeX

clumped-processing

Clumped isotope measurement processing script for Thermo Fisher MAT 253 plus isotope ratio mass spectrometer with the Kiel IV

clumped isotope
Data Analysis
mass spectrometry
+ 3

HTML
R

clumpedr

Clumpedr aims to facilitate analysis of clumped isotope data. It builds on isoreader which is used to import raw data files from the mass spectrometer, and most of the important data processing parts are based on Huntington et al. 2009 and Daëron et al. 2016.

Data Analysis
mass spectrometry

Makefile
R
Rez

rcrisp

rcrisp provides tools to automate the morphological delineation of riverside urban areas.

Data Analysis
geospatial
R
+ 1