andreamariani-am

andreamariani-am.github.io

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

bi-be-cs-183-2023

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

bookdown-mlbiostatistics

chipseq_snakemake

ChIPseq pipeline for Pasini's lab written in snakemake

combinatorial_indexing

Collection of some functions for combinatorial indexing experiments

cutntag_snakemake

CutNtag pipeline for Pasini's lab written in snakemake

denosing_chipseq

This repo contains different architectures for Denoising ChIPseq experiments

docker

This repo contains github actions to build various Docker Images

dplabr

hic

Analysis of Chromosome Conformation Capture data (Hi-C)

kind-pytorch-tutorial

Kind PyTorch Tutorial for beginners

new_pc_setup

This repo contains links and a tutorial on how to set up a new machine with all the tools i need + customizations

openproblems

Formalizing and benchmarking open problems in single-cell genomics

phd_notes

Collection of notes of my PhD done with Obsidian

rnaseq_snakemake

RNAseq pipeline for Pasini's lab written in snakemake

seqeditor

Package repo

test_hpc_rnaseq

This repo contains a shorter version of an RNAseq pipeline. It'll be used to test HPC resources

unsupervised_clustering_eval

Some functions to evaluate Unsupervised Clustering for Single Cell RNAseq