Prajwal Ghimire's Projects
Python code for running pycombat library to harmonise gene level fpkm values from RNA seq data
Python packaging for CPTAC data
This repository defines a Convolutional Neural Network (CNN) model that extracts deep features from Nifti MRI files of segmented glioblastoma tumours
This repository provides you with python code snippet on extracting Metadata of Dicom files including Magnetic field strength, study date and manufacturer.
EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
This repository contains code used to prepare the LUMIERE Glioblastoma dataset.
A Deconvolution Tool For Glioblastoma (GBM) Datasets
Automated deep-learning based brain extraction applicable to a broad range of MRI sequence types and with robust performance even in the presence of pathology or treatment-induced tissue alterations.
Automated deep-learning based brain tumor segmentation on MRI
This is a library of codes for extracting and saving metadata obtained from a aligned BAM file.
This repository provides code in jupyter notebook on application of neuroCombat package for radiomics data extracted from segmented MRI brain images
Principal Component Analysis (PCA) on a dataset of radiomics features
Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks. Support: https://discourse.slicer.org/c/community/radiomics
Tools to Design or Visualize Architecture of Neural Network
Automatic White Matter Bundle Segmentation
This repository has python code within Jupyter Notebook to convert unstranded fpkm values of RNA sequecing data to stranded fpkm values and then to gene-level fpkm values to standardize the data obtained from multiple datasets
Cell types enrichment analysis