Disease Association Protein-Protein Link Evaluator (Broad hosted algorithm)
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Updated
Jan 3, 2024 - Python
Disease Association Protein-Protein Link Evaluator (Broad hosted algorithm)
Genomic Identification of Significant Targets in Cancer
This is basic GenePattern module written in Python 3. It can be taken as a Template for future modules. (click 'Use this template' to get started)
Wraps the AmpliconSuite-pipeline workflow to identify one or more connected genomic regions which have copy number amplifications.
This a GenePattern Javascript visualizer that creates a CLS file from a GCT file.
Module for GSEA Julia Implementation
Actual creation of the Elastic Principa Graph in the STREAM scRNASeq Trajectory analysis, packaged as a GenePattern module
Detect differentially expressed genes between pairs of trajectory branches
Imports data from the Gene Expression Omnibus (GEO)
Determine which tryptic peptides will generate the highest signal in ESI-MS
Detect marker genes that distinguish the different trajectories
Visualize expression of genes of interest after Conos.Cluster has been ran.
Salmon Alevin (single cell) quantification wrapper module for GenePattern.
HTSeq (0.11.2) wrapper module: Counting reads in features with 'htseq-count'
Generate the signature subway and stream plots
Step one of the STREAM ssRNA-Seq Trajectory pipeline
Wrapper Script for Harmony designed to work with GenePattern Module Integrator
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