Configurable de novo assembly pipeline

Current versions

rampart requires the following formulae to be installed:
sickle 1.33
kmergenie 1.6976_1 Estimates the best k-mer length for genome de novo assembly
allpaths-lg 52488 Short read genome assembler
soapdenovo 2.04.r240_1 Next generation sequencing reads de novo assembler
velvet 1.2.10 Sequence assembler for very short reads
reapr 1.0.18_2 Evaluates accuracy of a genome assembly using mapped paired end reads
cegma 2.5 Core eukaryotic genes mapping approach
kat 2.3.4_2 K-mer Analysis Toolkit (KAT) analyses k-mer spectra
quake 0.3.5_3
quast 4.6.1 QUAST: Quality Assessment Tool for Genome Assemblies

Recent formula history

ilovezfs rampart 0.12.2
ilovezfs Revert "Use Ruby 1.9+ symbol hash keys in all formulae." (#4345)
JCount Use Ruby 1.9+ symbol hash keys in all formulae. (#4339)
Baptiste Fontaine rampart: obsolete optional deps removed
Xu Cheng remove root_url in bottle block

Formula code at GitHub