Wraps the AmpliconSuite-pipeline workflow to identify one or more connected genomic regions which have copy number amplifications.
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Updated
May 22, 2024 - Python
Wraps the AmpliconSuite-pipeline workflow to identify one or more connected genomic regions which have copy number amplifications.
Batch effect adjustment based on negative binomial regression for RNA sequencing count data. Credits: https://github.com/zhangyuqing/ComBat-seq
scVelo wrapper module for GenePattern
Repo for the dockerized HISAT2.aligner module
TCGA.SampleSelection wrapper module for GenePattern.
Disease Association Protein-Protein Link Evaluator (Broad hosted algorithm)
Module for GSEA Julia Implementation
GenePattern Notebook running Kallisto
Wrapper Script for Harmony designed to work with GenePattern Module Integrator
A configurable heat map viewer that provides users with several options for manipulating and visualizing array-based data
Genomic Identification of Significant Targets in Cancer
HTSeq (0.11.2) wrapper module: Counting reads in features with 'htseq-count'
Visualize expression of genes of interest after Conos.Cluster has been ran.
Salmon quantification wrapper module for GenePattern.
Salmon indexer wrapper module for GenePattern.
Salmon Alevin (single cell) quantification wrapper module for GenePattern.
GenePattern module which implements the batch correction algorithm within Seurat.
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