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@plaisier-lab Plaisier Lab (ASU)

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    27 repositories

    • scSignalMap

      Public
      Capturing signaling pathways using scRNA-seq data.
      R
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Feb 20, 2026Feb 20, 2026

    • ccafv2_R

      Public
      ccAFv2 cell cycle classifier R pacakge
      C
      •
      GNU General Public License v3.0
      •1•6•0•1•Updated Nov 20, 2025Nov 20, 2025

    • ccAFv2_py

      Public
      Python package for ccAFv2
      Python
      •
      GNU General Public License v3.0
      •1•0•1•0•Updated Jul 18, 2025Jul 18, 2025

    • METAFlux

      Public
      HTML
      •
      Other
      •13•0•0•0•Updated Jun 19, 2025Jun 19, 2025

    • miR4975p

      Public
      Python
      •0•0•0•0•Updated Dec 16, 2024Dec 16, 2024

    • ccAFv2

      Public
      Single cell RNA-seq cell cycle classifier
      R
      •
      GNU General Public License v3.0
      •1•4•0•0•Updated Nov 21, 2024Nov 21, 2024

    • cytospace

      Public
      CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
      Python
      •
      Other
      •20•0•0•0•Updated Dec 4, 2023Dec 4, 2023

    • OncoMerge

      Public
      Systematic integration of protein affecting mutations, gene fusions, and copy number alterations into a comprehensive somatic mutational profile
      Python
      •
      GNU General Public License v3.0
      •3•3•0•0•Updated May 18, 2023May 18, 2023

    • medioids_for_cibersort

      Public
      Code to convert single cell expression data into medioids for CIBERSORT deconvolution analysis.
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 21, 2023Feb 21, 2023

    • python3_courses

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Nov 20, 2022Nov 20, 2022

    • ccAF

      Public
      Cell cycle classifier for scRNA-seq data.
      Python
      •
      GNU General Public License v3.0
      •1•7•0•0•Updated Aug 10, 2022Aug 10, 2022

    • mpm_web

      Public
      Website to explore the mpmSYGNAL network.
      Python
      •
      GNU General Public License v3.0
      •0•0•4•0•Updated May 9, 2022May 9, 2022

    • docker_sc_pipeline

      Public
      Single cell RNA-seq pipeline for 10X data.
      Dockerfile
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 21, 2021Oct 21, 2021

    • CONICSmat

      Public
      Clone of CONICSmat with a key change!
      R
      •0•0•0•0•Updated Oct 21, 2021Oct 21, 2021

    • dockerSTAR_Homo_sapiens

      Public
      Dockerized RNA-seq pipeline with cutadapt, STAR alignment, and htseq-count for a complete analysis pipeline. Also builds the STAR index for Homo sapiens GRCh38.…
      Python
      •0•0•0•0•Updated Sep 21, 2021Sep 21, 2021

    • docker_miRge2_0

      Public
      Docker build file for miRge2_0
      Dockerfile
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 12, 2020Oct 12, 2020

    • dockerSYGNAL

      Public
      A dockerized version of the SYstems Genetics Network AnaLysis (SYGNAL) pipeline.
      Dockerfile
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 27, 2020Aug 27, 2020

    • docker_scRNA_seq_velocity

      Public
      Instructions to build an image which can run the software to compute RNA velocity.
      Dockerfile
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 26, 2020Aug 26, 2020

    • U5_hNSC_Neural_G0

      Public
      Neural G0: a quiescent-like state found in neuroepithelial-derived cells and glioma
      R
      •
      GNU General Public License v3.0
      •1•7•0•0•Updated Aug 12, 2020Aug 12, 2020

    • docker_exomeSeq

      Public
      Docker image with programs to analyze exome-seq data.
      Dockerfile
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 5, 2020Mar 5, 2020

    • sygnal

      Public
      SYstems Genetic Network AnaLysis (SYGNAL) pipeline
      Python
      •4•0•0•0•Updated Feb 4, 2020Feb 4, 2020

    • booleannet_py3

      Public
      Boolean Network Modeling
      Python
      •
      Other
      •28•0•0•0•Updated Jan 31, 2020Jan 31, 2020

    • dockerSCRABBLE

      Public
      Dockerfile
      •0•0•0•0•Updated Jan 10, 2020Jan 10, 2020

    • docker_cMonkey2

      Public
      A dockerized version of cMonkey2.
      Dockerfile
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 9, 2020Jan 9, 2020

    • dockerSeurat_2.3.0

      Public
      Dockerfile
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Jan 9, 2020Jan 9, 2020

    • mctb_single_cell_symposium

      Public
      Molecular, Cellular and Tissue Bioengineering Single Cell Symposium R Code
      R
      •
      GNU General Public License v3.0
      •1•3•0•0•Updated Jun 3, 2019Jun 3, 2019

    • OncoMergeAnalysis

      Public
      Contains scripts for analyzing and understanding the output from OncoMerge including value added assessments.
      Python
      •0•0•0•0•Updated Apr 2, 2019Apr 2, 2019
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