dnaPipeTE: de-novo assembly & annotation Pipeline for Transposable Elements
...d quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not require genome assembly and works on small d...2402 days ago
2394 days ago
Bandage: interactive visualization of de novo genome assemblies
Bandage (a Bioinformatics Application for Navigating De novo Assembly Graphs Easily) is a tool for...ights in the graph. By displaying connections between contigs, Bandage presents new po...2400 days ago
COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly
An efficient tool called Connecting Overlapped Pair-End (COPE) reads, to connect ov...than the recently published tool FLASH. When COPE is applied to real reads for genome assembly, the resulting conti...2399 days ago
Musket: a multistage k-mer spectrum based corrector
Musket is a well-established leading next-generation sequencing read error cor...Our performance evaluation results, in terms of correction quality and de novo genome assembly measures, reveal tha...2399 days ago
Harvest: a suite of core-genome alignment and visualization tools
Harvest is a suite of core-genome alignment and visualization tools for quickly...analyzing thousands of intraspecific microbial genomes, including variant calls, re...ogenetic trees. Tools Parsnp - Core-genome alignment and analysis Gingr...2397 days ago
jobTree based python wrapper to run the genome simulation tool suite Evolver
evolverSimControl (eSC) can be used to simulate multi-chromosome genome evolution on an arbitrary phylogeny (Newick format). In addition to simply running evolver, eSC also automatically cre...2396 days ago
2396 days ago
Mugsy: multiple whole genome alignment tool
Mugsy is a multiple whole genome aligner. Mugsy uses Nucmer for pairwise alignm...ategy from Seqan::TCoffee. Mugsy accepts draft genomes in the form of multi-FASTA files and does not require a reference genome. To cite Mugsy, use: Angiuo...2396 days ago
2392 days ago