Machine learning applications are rapidly adopted by industry leaders in any field. The growth of investment in AI-driven solutions created new challenges in managing Data Science and ML resources, people and projects as a whole. The discipline of managing applied machine learning teams, requires a healthy mix between agile product development tool-set and a long term research oriented mindset. The abilities of investing in deep research while at the same time connecting the outcomes to significant business results create a large knowledge based on management methods and best practices in the field. The Second KDD Workshop on Applied Machine Learning Management brings together applied research managers from various fields to share methodologies and case-studies on management of ML teams, products, and projects, achieving business impact with advanced AI-methods.

Machine learning applications are rapidly adopted by industry leaders in any field. The growth of investment in AI-driven solutions created new challenges in managing Data Science and ML resources, people and projects as a whole. The discipline of managing applied machine learning teams, requires a healthy mix between agile product development tool-set and a long term research oriented mindset. The abilities of investing in deep research while at the same time connecting the outcomes to significant business results create a large knowledge based on management methods and best practices in the field. The Workshop on Applied Machine Learning Management brings together applied research managers from various fields to share methodologies and case-studies on management of ML teams, products, and projects, achieving business impact with advanced AI-methods.

MOTIVATION: Advances in Next-Generation Sequencing technologies and sample preparation recently enabled generation of high-quality jumping libraries that have a potential to significantly improve short read assemblies. However, assembly algorithms have to catch up with experimental innovations to benefit from them and to produce high-quality assemblies. RESULTS: We present a new algorithm that extends recently described exSPAnder universal repeat resolution approach to enable its applications to several challenging data types, including jumping libraries generated by the recently developed Illumina Nextera Mate Pair protocol. We demonstrate that, with these improvements, bacterial genomes often can be assembled in a few contigs using only a single Nextera Mate Pair library of short reads. AVAILABILITY AND IMPLEMENTATION: Described algorithms are implemented in C++ as a part of SPAdes genome assembler, which is freely available at bioinf.spbau.ru/en/spades. CONTACT: [email protected] SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

UNLABELLED: Next-generation sequencing (NGS) technologies have raised a challenging de novo genome assembly problem that is further amplified in recently emerged single-cell sequencing projects. While various NGS assemblers can use information from several libraries of read-pairs, most of them were originally developed for a single library and do not fully benefit from multiple libraries. Moreover, most assemblers assume uniform read coverage, condition that does not hold for single-cell projects where utilization of read-pairs is even more challenging. We have developed an exSPAnder algorithm that accurately resolves repeats in the case of both single and multiple libraries of read-pairs in both standard and single-cell assembly projects. AVAILABILITY AND IMPLEMENTATION: http://bioinf.spbau.ru/en/spades