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CHS / progs / SMI
GNU General Public License v3.0 or laterUpdated -
mhm / mHM Tools
GNU General Public License v3.0 or laterTools to pre- and post-process data for and from mHM.
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Xiangjin Meng / mHM
GNU General Public License v3.0 or laterThe mesoscale Hydrological Model - mHM
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Isabel Karkossa / proteomicsr
MIT LicenseProvided are functions suitable for the analysis of mass spectrometry-based proteomics data, providing global information on protein abundance and abundances of post-translational modifications (PTMs). However, at least in parts, this package can be also used to analyse other omics, e.g. metabolomics and transcriptomics. The package includes processing of fold changes (e.g. from TMT or SILAC experiments) and intensities (e.g. from LFQ experiments). Processing includes checking reproducibility (PCAs, correlation bubble plots, sample-2-sample distance plots), identification of outliers (based on Mahalanobis distance), log2 transformation, median normalization, filtering for reliably identified proteins/sites, variance stabilization (based on the 'DEP' package), imputation (based on the 'DEP' package), calculation of average log2(fold changes), p-values, and adjusted p-values. These basic results are visualized (volcano plots, stacked bar charts of significant changes, numbers of identified proteins). Enrichment analyses (using 'clusterProfiler') are conducted based on the gene sets stored in the MSigDB (using 'msigdbr') and are visualized subsequently. Also enrichment results obtained using the 'Ingenuity Pathway Analysis' tool (Qiagen) are visualized. Weighted Gene Correlation Network Analysis ('WGCNA', including module formation, module-trait correlation, identification of hub genes/key drivers, visualization of results) is conducted. For PTM data, site intensities are extracted based on Proteome Discoverer's Peptide Isoform table. Furthermore, kinase enrichment for phosphoproteomics data using 'KinSwingR' can be conducted.
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Ein R-Paket für die Interaktion mit der BfN Checklisten-API
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Taimur Khan / OPeNDAP Catalog
MIT LicenseUpdated -
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This is used for building the coupled stream-groundwater model of Selke catchment.
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Afid Nur Kholis / mHM_SLI
GNU General Public License v3.0 or laterUpdated -
Daniel Power / cornish_pasdy
GNU General Public License v3.0 onlyCORNish PASDy -- COsmic-Ray Neutron flavored PASDy PASDy -- Processing and Analysis of Sensor Data in pYthon
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BESTMAP / BESTMAP-AES-EU
GNU General Public License v3.0 or laterUpdated -
Jupyter Notebooks zu den Übungen der Lehrveranstaltung
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Matthias Bernt / SaQC
OtherA consistent, extensible, easy-to-use tool/framework for reproducible quality control of time series data.
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Pipeline Repo for the SEEFO (intitute for lake research Magdeburg) data pipelines. Get a project overview here: https://confluence.digitalearth-hgf.de/display/RDM/SEEFO+Pipeline
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