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introduction_to_ml_with_python

Notebooks and code for the book "Introduction to Machine Learning with Python"

karyoploter

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

liftoverbedpe

This is the script to liftover bedpe files

llthw-zh

:book: [译] 笨办法学 Linux

lmpythw-zh

:book: [译] 笨办法学 Python · 续

lspr

Periodicity detection algorithm for unevenly spaced circadian gene expression data

machine-learning-tutorials

machine learning and deep learning tutorials, articles and other resources

metaseq

Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data

mit-deep-learning-book-pdf

MIT Deep Learning Book in PDF format (complete and parts) by Ian Goodfellow, Yoshua Bengio and Aaron Courville

mosdepth

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

msi

Scripts used for projects at MSI

msi_nanopore

instructions and scripts for working with nanopore data on MSI

nanoseq

Nanopore demultiplexing, QC and alignment pipeline

ngrammotif

Detecting motif enrichment and spatial signatures from TF ChIP-seq data.

pandas-cookbook

Recipes for using Python's pandas library

plain-academic

A truly simple website template for academics

poverlap

significance testing over interval overlaps

pygenometracks

python module to plot beautiful and highly customizable genome browser tracks

pysamstats

A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.

python-guide

Python best practices guidebook, written for Humans.

python_reference

Useful functions, tutorials, and other Python-related things

pytorch-handbook

pytorch handbook是一本开源的书籍，目标是帮助那些希望和使用PyTorch进行深度学习开发和研究的朋友快速入门，其中包含的Pytorch教程全部通过测试保证可以成功运行

regtools

Tools that integrate DNA and RNA sequencing data to help interpret mutations in a gene regulatory context.

rnaseq_tutorial

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

rpackages

R package development - the Leek group way!

rvspython

A repo comparing syntax in R and Python for various tasks. Not comprehensive, but a subset of lines to get one started

scanindel

The integrated pipeline for Indel detection

scikit-bio

Core objects, functions and statistics for working with biological data in Python.

sequencetubemap

displays multiple genomic sequences in the form of a tube map

sg-nex-data