njdbickhart Goto Github PK

njdbickhart.github.io

Bovine Pan-Genome Consortium Website

objectutils

A personal library for manipulating collections, enumerated sets and the like

pairmatchmrsfastsam

A requisite program for CoSVarD that pairs single-end fastq alignments, splits One End Anchor (OEA) read unmapped mates, and generates divet files

perl_toolchain

Backup for my personal perl scripts

poprdsw

A read depth CNV detection algorithm that uses population data

pseudohaploid

Create a pseudohaploid assembly from a partially resolved diploid assembly

python_toolchain

A collection of my python 3 scripts and programs

raptr-sv

RAPTR-SV uses Read Pair and Split Read methods to identify structural variants in paired-end WGS data

raptr-util

Utilities for RAPTR-SV

refineassembly

A program designed to use related species reference genomes in order to estimate likely assembly errors and genuine assembly differences

resolvekmergraph

A tool to use heterozygous kmers to resolve read origins

rumenlongreadasm

Scripts, notes and commands to accompany our Rumen Metagenome assembly manuscript

sheephifimanuscript

A collection of scripts and workflows to analyze HiFi assembled metagenomes

siff

Interrogate, reformat and validate assembly fasta files

tfbsconssites

themis-asm

A genome assembly comparison pipeline using comparative alignment statistics