BOL

Script of scripts: A pragmatic workflow system for daily computational research https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1006843 #SoS #Script #Analysis #Tools #Pipeline

Human genome reads http://www.bcgsc.ca/downloads/btl/ntedit/paper/human/ #human #genome #reads #data

NGS Exercise.4 https://wiki.bits.vib.be/index.php/NGS_Exercise.4 #Exercise #Learn #Plot #Circos #Genome #NGS #Tutorial

ALLHiC: identify allelic contigs https://github.com/tangerzhang/ALLHiC/wiki/ALLHiC:-identify-allelic-contigs #AllHic #Scaffolding #3C #ALLHiC

De novo genome assembly https://astrobiomike.github.io/genomics/de_novo_assembly #Genome #Assembly #DeNovo #Genome

Errors in sequence assembly and corrections (Bioinformatics) http://what-when-how.com/bioinformatics/errors-in-sequence-assembly-and-corrections-bioinformatics/ #Assembly #Error

Long read assembly workshop https://www.melbournebioinformatics.org.au/tutorials/tutorials/pacbio/ #Long #Reads #Assembly #PacBio #Learn #Tutorial #Workshop

https://bioinformaticsdotca.github.io/high-throughput_biology_2017 #NGS #Tutorial #Learn #Assembly

polySNP: an analysis tool for quantitative sequencing https://www.nybg.org/files/scientists/dlittle/polySNP.html #SNP #polySNP #analysis #peak #Area

Mutalyzer website https://www.mutalyzer.nl/ #Mutation #Analysis

Extract fasta with pattern $ perl -n -e '$on=(/^>(A)/) if (/^>/); print $_ if ($on);' pilonCor_round1.fasta > A_set.fa #Pattern #Extract #Fasta

Fastq 2 fasta convert $ sed '/^@/!d;s//>/;N' sample1.fq > sample1.fa #fastq2fasta #fastqtwofasta

One liner to remove the description information from a fasta file and just keep the identifier $ perl -p -i -e 's/>(.+?) .+/>$1/g' sample1.fa #clean #header #fasta

http://ms-utils.org/ #MassSpectrometry #tools #packages #databases

https://docs.microsoft.com/en-us/machine-learning-server/deployr/deployr-about #Rscripts #into #analytics #web #services