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MapMan

MapMan visualises data from gene expression analyses. Genes or proteins with a common function are visualised and evaluated together. Mercator assigns the annotations for this. Changes in processes and pathways can be revealed, visualised and evaluated quantitatively.

Annotation
Earth & Environment
Gene Expression
+ 2

MassBank

MassBank is an open source mass spectral library for the identification of small chemical molecules of metabolomics, exposomics and environmental relevance.

database
Earth & Environment
mass spectrometry

mobile Drilling Information System (mDIS)

mDIS is a database management application for capturing and curating meta data on geological samples, drilling progress, and related datasets such as images or geophysical well logs. It is easily adaptable and ensures that all data is compiled and quality controlled in one place.

data management
drilling
Earth & Environment
+ 1

PHP
Vue
JavaScript
+ 2

me-compute

me-compute: a Python software to download events and data from FDSN web services and compute their energy magnitude (Me)

energy magnitude
FDSN
seismic data
+ 1

Python
HTML

MemBrain v2

MemBrain v2 aims to facilitate the analysis of membranes in cryo-electron tomography data. It consists of the components membrain-seg for membrane segmentation, membrain-pick for membrane protein localization, and membrain-stats for the extraction of membrane-based metrics.

Python

MERCY

The marine mercury cycling model MERCY v2.0 is a chemistry transport and bio-accumulation model for mercury (Hg). It implements all known processes for marine (pelagic and benthic) Hg cycling into a biogeochemical 3D ocean-ecosystem model. https://gmd.copernicus.org/preprints/gmd-2021-427/

Bioaccumulation
Chemistry Transport Modeling
Earth & Environment
+ 6

methylKit

methylKit is an R package for DNA methylation analysis and annotation from high-throughput bisulfite sequencing. The package is designed to deal with sequencing data from RRBS and its variants, but also target-capture methods and whole genome bisulfite sequencing.

Metrics Reloaded

The mission of Metrics Reloaded toolkit is to guide researchers in the selection of appropriate performance metrics for biomedical image analysis problems and to provide a comprehensive online resource for metric-related information and pitfalls.

Algorithm Validation
Problem-Aware Metric Selection
Problem Fingerprint

mHM

The mesoscale Hydrologic Model (mHM) is a well established hydrological model used by the scientific community. It is under active development with dozens of contributors and has an open community always interested in discussions.

Earth & Environment
mesoscale hydrologic model
mHM
+ 2

AGS Script
Fortran Free Form
Python
+ 2

Mibianto

Mibianto is an easy to use web service for efficient compositional analysis of metagenomic sequencing data. By using FracMinHash on client side the uploaded sequence data is anonymized and drastically reduced in size.

Data analysis
Metagenomics
Web application
+ 1

Millepede II

Millepede II has been developed to solve the linear least squares problem with a simultaneous fit of all global and local parameters, irrespectively of the number of local parameters.

Alignment
Large linear equation system
Matter
+ 1

Fortran Free Form
C
Python
+ 2

MO|DE.behave

MO|DE.behave is a Python-based software package for the estimation and simulation of discrete choice models and shall enable rapid quantitative analyses based on survey data on choice behavior, utilizing advanced discrete choice methods. Please refer to 'doi.org/10.21105/joss.05265'.

Python
TeX