Pca-on-genotypes - Mini bioinformatics project - PCA on genotypes

Last update: Dec 04, 2022

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Overview

Mini bioinformatics project: PCA on genotypes

This repo contains the code from this video: https://youtu.be/-PCKK_nwFdA

If you somehow end up publishing a paper based on this type of project, you should cite this original paper it was inspired by: https://www.nature.com/articles/nature07331

URLs to download files

curl -O ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20110521/ALL.chr22.phase1_release_v3.20101123.snps_indels_svs.genotypes.vcf.gz

curl -O ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20110521/ALL.chr22.phase1_release_v3.20101123.snps_indels_svs.genotypes.vcf.gz.tbi

curl -O ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20110521/phase1_integrated_calls.20101123.ALL.panel

# Faster downloads through AWS:

curl -O https://1000genomes.s3.amazonaws.com/release/20110521/ALL.chr22.phase1_release_v3.20101123.snps_indels_svs.genotypes.vcf.gz

curl -O https://1000genomes.s3.amazonaws.com/release/20110521/ALL.chr22.phase1_release_v3.20101123.snps_indels_svs.genotypes.vcf.gz.tbi

curl -O https://1000genomes.s3.amazonaws.com/release/20110521/phase1_integrated_calls.20101123.ALL.panel

# or use "wget" instead of "curl -O" if you don't have curl.

Colab notebook:

https://colab.research.google.com/drive/1o24ZfqDoBEwvRSx_Br1u7edPPXLLx4w7?usp=sharing

Pca-on-genotypes - Mini bioinformatics project - PCA on genotypes

Related tags

Overview

Mini bioinformatics project: PCA on genotypes

URLs to download files

Colab notebook:

Owner

Maria Nattestad

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Pca-on-genotypes - Mini bioinformatics project - PCA on genotypes

Related tags

Overview

Mini bioinformatics project: PCA on genotypes

URLs to download files

Colab notebook:

Owner

Maria Nattestad

Realtime segmentation with ENet, the fast and accurate segmentation net.

Code for the paper "M2m: Imbalanced Classification via Major-to-minor Translation" (CVPR 2020)

This repository provides some of the code implemented and the data used for the work proposed in "A Cluster-Based Trip Prediction Graph Neural Network Model for Bike Sharing Systems".

This is the pytorch implementation for the paper: *Learning Accurate Performance Predictors for Ultrafast Automated Model Compression*, which is in submission to TPAMI

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This repository contains answers of the Shopify Summer 2022 Data Science Intern Challenge.

ViDT: An Efficient and Effective Fully Transformer-based Object Detector

Real-CUGAN - Real Cascade U-Nets for Anime Image Super Resolution

Codes for CIKM'21 paper 'Self-Supervised Graph Co-Training for Session-based Recommendation'.

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Locationinfo - A script helps the user to show network information such as ip address

SOLOv2 on onnx & tensorRT

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