BOL

In this lab we will perform de novo genome assembly of a bacterial genome. You will be guided through the genome assembly starting with data quality control, through to building contigs and analysis of the results. At the end of the lab you will...

Genome assembly tutorial https://bioinformaticsdotca.github.io/high-throughput_biology_2017_module6_lab #tutorial #assembly #tools #steps #pipeline

how to polish a genome assembly https://nanopolish.readthedocs.io/en/latest/quickstart_consensus.html #polish #nanopolish #ont #nanopore #consensus

Using R language with Anaconda https://docs.anaconda.com/anaconda/user-guide/tasks/use-r-language/ #R #Anaconda #Language

Create user with bash $su - joker #user #bash #create

Read a file in terminal $ less file2 #bash #less

Write in a file in bash $ cat >> file then ctrl+d to exit #bash #cat #write

List all the bash command related to time $ apropos time #bash #time #list

Find the file $ locate xgenome or locate fstab #bash #locate

To know about the file detail $ file .face #file #detail

ls -a to list all files #bash #list #ls

To move between current directories $ popd and pushd #pushd #popd #bash

SLURM how to tutorial at #slurm" rel="nofollow">https://www.genouest.org/howto/#slurm #slurm #how #FAQ

Placentals: http://blogs.discovermagazine.com/loom/2012/02/14/mammals-made-by-viruses/ Tunicates: https://www.pnas.org/content/pnas/101/4/986.full.pdf https://www.pnas.org/content/pnas/102/42/15134.full.pdf  

The R package GA provides a collection of general purpose functions for optimization using genetic algorithms. The package includes a flexible set of tools for implementing genetic algorithms search in both the continuous and discrete...

Machine learning/Generic algorithms in R https://www.r-bloggers.com/feature-selection-using-genetic-algorithms-in-r/ #Genetic #Algorithms #R #Code #GA

The #p53 #pathway: positive and negative feedback loops https://www.nature.com/articles/1208615

ATM, ATR, and DNA-PK: The Trinity at the Heart of the #DNA #Damage Response https://www.sciencedirect.com/science/article/pii/S1097276517303544

GeNeCK (Gene Network Construction Kit) is a comprehensive online tool kit that integrate various statistical methods to construct gene networks based on gene expression data and optional hub gene information. It efficiently constructs gene...

Split a multi-FASTA file into individual FASTA files: awk '/^>/{s=++d".fa"} {print > s}' multi.fa #split #multifasta