Curator Dashboard

Software tool for upgraded implementation of probabilistic scoring of affinity purification mass spectrometry data. Used for filtering high confidence interaction data from affinity purification mass spectrometry experiments. Used for assigning confidence scores to protein-protein interactions based on quantitative proteomics data in AP-MS experiments.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Web server for blind peptide protein docking based on hierarchical algorithm. Blind peptide-protein docking by fast modeling of peptide conformations and global sampling of binding orientations.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software R package for visualization and annotation of phylogenetic trees with their covariates and other tree like structures with their annotation data. Can import evolutionary data from different tree file formats and analysis programs as well as other associated data from experiments so that various sources and types of data can be displayed on tree for comparison and further analyses.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software program for spatial analysis for non geographic information systems specialists. Includes functionality ranging from simple mapping to exploratory data analysis, visualization of global and local spatial autocorrelation, and spatial regression.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Web server for protein structure prediction and refinement. Used to predict protein structure from sequence by template based modeling. Used for refinement after providing starting model structure and locations of loops or termini to be refined.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software tool as model building program for cryo-electron microscopy. Processes cryoEM maps through secondary structure stage and Cα stageA. Template matching based automatic model building program for high resolution Cryo-Electron Microscopy maps.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software package for sequence alignment. Pairwise aligner for aligning DNA sequences. Designed to handle sequences size of human chromosomes and from different species. Useful for sequences produced by NGS sequencing technologies.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Desktop application that provides interactive visualization functionality to analyze data from different 10x Genomics solutions. Used to interrogate different views of 10x data to gain insights into underlying biology.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software technical plotting, curve fitting and data analysis application. Provides graphical user interface for data exploration as well as various statistical analysis tools, peak fitting options, raster or vector formats of publishable plots. Graphing software for medical writers.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software workflow and set of tools for scholarly publishing to enable collaborative authoring of scholarly manuscripts. Used to write manuscript in markdown, track it with git, automatically convert it to .html, .pdf, or .docx, and deploy it to destination of choice.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Web tool for maximizing usable data in alignment. Maximizes number of characters that are present in gap free columns alignment area by selecting optimal subset of sequences. Removes sequences with many gaps in post process of alignments in order to improve alignment area.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software tool as Next Generation Sequencing assembler. Optimized for metagenomes, but also works well on generic single genome assembly (small or mammalian size) and single cell assembly. Can assemble genome sequences from metagenomic datasets of hundreds of Giga base-pairs in time and memory efficient manner on single server.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software tool as pairwise alignment for nucleotide sequences. Alignment program to map DNA or long mRNA sequences against large reference database. Versatile pairwise aligner for genomic and spliced nucleotide sequences.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software R package to combine differential gene expression results. Differential expression meta analysis tool. Gene expression meta analysis visualization tool. Used to identify genes whose expression is consistently perturbed across several studies., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Open source virtual screening software for computational drug discovery with intuitive user interface. Runs on operating systems Linux, Windows, and Mac OS. Used to screen libraries of compounds against potential drug targets.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software Python package for Bayesian statistical modeling and probabilistic machine learning which focuses on advanced Markov chain Monte Carlo and variational fitting algorithms. Allows model specification directly in Python code.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Web tool as secondary structure prediction method, incorporating two feed forward neural networks which perform analysis on output obtained from PSI-BLAST. Web server offering analyses of protein sequences.

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• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Command line program that performs analyses or modifications on both trees and data matrices. Software phyloinformatics tool for trees, alignments and molecular data. Used for summarizing and manipulating phylogenetic trees, manipulating molecular data and retrieving data from NCBI.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Sofware package for performing Bayesian phylogenetic inference under models that deal with structured populations with complex population dynamics. Enables simultaneous estimation of epidemiological parameters and pathogen phylogenies. Epidemiological modelling in BEAST.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson

Software R package to impute missing values particularly in case of mixed type data. Non parametric, mixed type imputation method for any type of data for statistical software R. Predicts missing values.

• Resource
• RRID-Legacy
• 6 years ago - submitted by Nathan Anderson