BOL

Thanks for such a useful list of synteny identification tools. If anyone interested to analyze synteny at the protein level, they can try this tool https://github.com/thiesgehrmann/proteny

I am currently dealing with new contig assembly dataset, and bit confused about N50 and L50 stuff ....

Microscope Platform user documentation. The MicroScope platform is available at this URL: https://www.genoscope.cns.fr/agc/microscope

Hi Amala, This research article http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2906097/ would be much very helpful for you to understand the domain. Thanks  

Ultrafast and accurate nucleotide-resolution analysis of structural variants More at http://bioinform.github.io/breakseq2/ Download BreakSeq2 Latest version: https://github.com/bioinform/breakseq2/archive/2.2.tar.gzFor other versions, see...

Machine Learning in Python Simple and efficient tools for data mining and data analysis Accessible to everybody, and reusable in various contexts Built on NumPy, SciPy, and matplotlib Open source, commercially usable - BSD license More...

Destruct is a tool for joint prediction of rearrangement breakpoints from single or multiple tumour samples. More at https://bitbucket.org/dranew/destruct

This software is designed to identify both simple and complex rearrangements from paired-end sequencing data. Users could ran it easily by just alling SVelter.py with proper parameters. It's also possible to ran it on multiple cores by...

#High-quality #genome #(re)assembly using #chromosomal contact data http://www.nature.com/ncomms/2014/141217/ncomms6695/full/ncomms6695.html

#Computational #Cancer Biology: An #Evolutionary Perspective http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004717

The Ensembl comparative genomics resources are one such reference set that facilitates comprehensive and reproducible analysis of chordate genome data. Ensembl computes pairwise and multiple whole-genome alignments from which large-scale synteny,...