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awesome-semi-supervised-learning

:scroll: An up-to-date & curated list of awesome semi-supervised learning papers, methods & resources.

bash-tutorial

Bash 教程

bayesian-active-learning-pytorch

Implementation of Bayesian NNs in Pytorch (https://arxiv.org/pdf/1703.02910.pdf) (With some help from https://github.com/Riashat/Deep-Bayesian-Active-Learning/))

bin3c

Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.

checkm

Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes

checkm2

Assessing the quality of metagenome-derived genome bins using machine learning

constrained-k-means

Implementing COP-Kmeans and PC-Kmeans

database

deepdecon

DeepDecon: A Deep-learning Method for Estimating Cell Fractions in Bulk RNA-seq Data with Applications to AM

dyxstat.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

glmmtmb

glmmTMB

hellinger-distance-criterion

Random Forest model using Hellinger Distance as split criterion

hicbin

HiCBin: binning metagenomic contigs and recovering metagenome-assembled genomes using Hi-C contact maps

hiczin

HiCzin: Normalizing metagenomic Hi-C data and detecting spurious contacts using zero-inflated negative binomial regression

hifine

HiFine: integrating Hi-c-based and shotgun-based methods to reFine binning of metagenomic contigs

imputecc

ImputeCC enhances integrative Hi-C-based metagenomic binning through constrained random-walk-based imputation

magpy

Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)

meta-learning-papers

Meta Learning / Learning to Learn / One Shot Learning / Few Shot Learning

metacc

MetaCC allows scalable and integrative analyses of both long-read and short-read metagenomic Hi-C data

metator

Metagenomic binning based on Hi-C data

metawrap

MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis

mgcpy-old

MGCPY WILL NO LONGER BE UPDATED. THE NEW REPO CAN BE FOUND HERE:

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

nonnegfac-python

Python toolbox for nonnegative matrix factorization

pharokka

fast phage annotation program

prokka

:zap: :aquarius: Rapid prokaryotic genome annotation

pytorch-vae

A Variational Autoencoder (VAE) implemented in PyTorch

reproduce_metacc

reproduce_viralcc

Instruction of reproducing results in ViralCC paper

schain

The code of SCHAIN in the paper Semi-supervised Clustering in Attributed Heterogeneous Information Networks