amalit Goto Github PK

2016-01-28-training-prep

allbiotc2

Benchmark pipeline for Structural Variation analyses, funded by the ALLBio

amali_pti_git

git workshop material

blueskies16

codfish-hook

Say you're a codfish.

conferences

A list of conference

delly

DELLY: Structural variant discovery by integrated paired-end and split-read analysis

error_correction

PeerJ Error Correction Paper

flye

De novo assembler for single molecule sequencing reads using repeat graphs

git-novice

Software Carpentry introduction to Git for novices.

kraken_db_install_scripts

Updated Kraken DB install scripts to cope with new-ish NCBI structure

mcclintock

Meta-pipeline to identify transposable element insertions using next generation sequencing data

methods-and-musings

A (growing) collection of information contributed by Genomics Aotearoa members. Semi blog post style bites of content.

nanopolish

Signal-level algorithms for MinION data

ngs_te_mapper

Software for detecting non-reference transposable element insertions from next-generation sequencing data

planets

swc workshop

planets2

going to mars

retroseq

RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference transposable elements. Please read the wiki page (link below) for usage instructions. Also, there is a page on the wiki describing how the 1000 genomes CEU trio was carried out with the files and parameters used for the various steps.

sandpit

A demonstration repository

tangram

Fast Structural Variation Detection Toolbox