24 de enero de 2014

breeding informatics job Dupont-Pioneer (Seville, Spain)

os paso una oferta que me ha llegado por si a alguien le interesa, el contacto es  Eva Guzmán (eva dot guzman at pioneer dot com), hasta luego,

Senior Research Associate position


Provide computer and software support for researchers in crop product development programs world-wide. The senior research associate will be an integral part of the crop development team located in, and supported by, the researchers in Seville, Spain. The successful candidate will provide support for IM tools and processes and may interact with project leaders, SCRUM team(s) and members of the non-corn hybrid crop breeding staff to assist in the development and implementation of software solutions to meet research and production needs.

Provide training and client support for software applications. The successful candidate will troubleshoot and resolve technical problems primarily in support of sunflower and canola breeding in European countries. The successful applicant will work directly with breeders to become familiarized with research activities and processes relevant to the crop and region they support. They will interact directly with the app support representative in Johnston to implement software solutions, train clients worldwide on the use of software, and offer timely solutions to client IM needs. She/he will prepare and maintain training materials and provide training for new staff. 

Ensure that production bugs are routed through the recommended channels for prompt resolution and that clients’ needs are addressed in a timely and efficient manner. The successful candidate will work directly with clients and the development team(s) to promptly address urgent production issues. She/he may contribute to the establishment of a knowledge base to assist other client support representatives in addressing IM support needs, log production bugs, document bug fixes and ensure they are communicated to relevant RIM Support and Development teams.

Under the direction of the CPD RIM Support Manager, serve as the primary support contact on key initiatives and software development projects directly related to the crops and regions he/she supports. Responsibilities will include working with research clients to identify and document IM needs, working with software development staff to provide IM solutions when necessary, validating and testing newly developed software, and developing end-user documentation. Adapt and test compatibility of internal systems with locally available hardware.


• B.S. degree in Computer Science, Bioinformatics, Information Systems, Biology, Agronomy, Molecular Genetics, Plant Breeding or related field with 2 – 4 years of industry related experience or M.Sc. degree in Computer Science, Agronomy or related field with 0 – 2 years of industry related experience or B.S.
o Science competencies;
 Experience in lab/field/greenhouse plant breeding research. Knowledge of experimental design and/or statistics. Understanding of molecular genetics and molecular breeding applications as it pertains to cultivar development.

o IM competencies;
 Excellent database, web, and/or PC skills, both functional and technical skills preferred. Experience supporting or strong familiarity with Windows Operating System. Experience with database and/or network support. Familiarity with personal computer software, client-server technology, and internet technology. Familiarity with software application to plant breeding preferred.  Demonstrated understanding of relational databases and ability to extract, summarize, and report large amounts of data.  Strong desire to contribute to the discovery and implementation of IM solutions in support of breeding activities.

o General competencies;
 Excellent written and oral communication skills and demonstrated ability to communicate complex information in a clear and concise manner.  Experience coordinating technical training and support programs to clients. Experience with customer-service preferred. Demonstrated ability to effectively manage priorities in a high-demand, time-sensitive work environment.  Demonstrated ability to work cooperatively in a diverse team environment.  Strong interpersonal and communication skills.

17 de enero de 2014

Congreso BIFI2014 y taller internacional de bioinformática


la próxima semana el laboratorio estará en dos eventos simultáneos:


1) los Talleres Internacionales de Bioinformática TIB2014, donde Carlos Pérez Cantalapiedra participa como profesor en el "Taller 2: Bioinformática para análisis de datos de secuenciación masiva (NGS)". Este evento tiene lugar en el campus UNAM en Cuernavaca, Morelos, México. Aprovecho para señalar que, entre otras muchas herramientas y utilidades para el manejo de datos NGS, Carlos empleará dos programas desarrollados en el laboratorio, uno escrito en C++ y otro en Perl:
  •  split_pairs: efficient kseq-based program to sort and find paired reads within FASTQ/FASTA files, with the ability to edit headers with the power of Perl-style regular expressions
  •  split_blast: Perl script to take advantage of multi-core CPUs for doing BLAST searches that fit in RAM, del que ya hablamos en este blog

2) la IV International Conference BIFI 2014, en Zaragoza, España, donde el laboratorio presenta varios pósters y una charla sobre trabajo reciente.

Nos vemos allí, un saludo,

10 de enero de 2014

New release of GET_HOMOLOGUES

Dear users,
today we are announcing a new release of the GET_HOMOLOGUES package (20140110) that includes an updated version of compare_clusters.pl, which now performs as explained in the manual, including option -T for creating a parsimony pangenomic tree. The download links to get this code are as usual:




Please let us know of any other bugs that you might encounter, we appreciate your comments,
many thanks,

Bruno Contreras and Pablo Vinuesa

4 de enero de 2014

Bioinformatician NGS Best Wishes for New Year

This year we didn't have Christmas greeting in the blog, and I received an email from Santa Claus asking for it. So we'll wish the best for New Year... (remember about the free NGS course in Zaragoza in January 2014)