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mirge

miRge - microRNA alignment software for small RNA-seq data, now at v2.0

mirgff3

GFF3 format with miRNA and isomiR information from sequencing data

mirna

microRNA profiling pipeline

mirtrace

miRTrace

morpheus.js

JavaScript matrix visualization and analysis

msifromhe

predict microsatellite status from hematoxylin-eosin histology of gastrointestinal cancer

multicore-tsne

Parallel t-SNE implementation with Python and Torch wrappers.

my_wgcna

ncrf

Cancer metastasis detection with neural conditional random field (NCRF)

nextflow

A DSL for data-driven computational pipelines

nlog-targets-seq

An NLog target that writes events to Seq. Built for NLog 4.5+.

northernbug.github.io

The NorthernBUG Website

novosparc

nucleisegmentation

cGAN-based Multi Organ Nuclei Segmentation

omniclip

omniCLIP is a CLIP-Seq peak caller

openslide

C library for reading virtual slide images

orca

:whale: Genomics Research Container Architecture

orqas

ORF Quantification pipeline for Alternative Splicing

pandas

Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more

parliament2

Runs a combination of tools to generate structural variant calls on whole-genome sequencing data

pathology-images-analysis-using-cnn

Scripts for https://www.nature.com/articles/s41598-018-27707-4, using Convolutional Neural Network to detect lung cancer tumor area

pcam

The PatchCamelyon (PCam) deep learning classification benchmark.

pcap-core

Legacy, see cancerit/PCAP-core: NGS reference implementations and helper code for the IGCG/TCGA Pan-Cancer Analysis Project

pcatools

PCAtools: everything Principal Components Analysis

pdx-analysis-workflows

peakachu

Peak calling tool for CLIP-seq data

penncnv

Copy number vaiation detection from SNP arrays

penndiff

piranha

Piranha is a peak-caller for CLIP- and RIP-seq data

plotly.js

The open source JavaScript graphing library that powers plotly