Faculty of Science, Charles University

Course of work in Linux command line not only for MetaCentrum 2018

Submitted by vojta on Wed, 10/04/2017 - 12:46

Don’t be afraid of command line! It is friendly and powerful tool. Practically identical is command line also in Mac OS X, BSD and another UNIX-based systems, not only in Linux. Basic knowledge of Linux is not conditional. Course will be taught in Linux, but most of the point are applicable also for another UNIX systems like Mac OS X. Knowledge of Linux/UNIX is useful e.g. for working with molecular and another data. MetaCentrum is service provided by CESNET allowing access to huge computational capacity.

Course of work with molecular data in R 2018

Submitted by vojta on Wed, 10/04/2017 - 11:00

R is nowadays probably the most powerful tool for statistics of all types. There are plenty of modules available for work with molecular data. Those will be introduced during the course. Previous knowledge of R is useful, but not necessary. If there is at least one participant not speaking Czech, the course will be in English.

The course will be extended this year, prolonged to 4 days and honored by 2 credits.

Course of work with molecular data in R 2017

Submitted by vojta on Tue, 10/11/2016 - 14:38

R is nowadays probably the most powerful tool for statistics of all types. There are plenty of modules available for work with molecular data. Those will be introduced during the course. Previous knowledge of R is useful, but not necessary. If there is at least one participant not speaking Czech, the course will be in English.

Course of work in Linux command line not only for MetaCentrum 2017

Submitted by vojta on Tue, 10/11/2016 - 11:57

Don’t be afraid of command line! It is friendly and powerful tool. Practically identical is command line also in Mac OS X, BSD and another UNIX-based systems, not only in Linux. Basic knowledge of Linux is not conditional. Course will be taught in Linux, but most of the point are applicable also for another UNIX systems like Mac OS X. Knowledge of Linux/UNIX is useful e.g. for working with molecular and another data. MetaCentrum is service provided by CESNET allowing access to huge computational capacity.

Course of work with molecular data in R 2016

Submitted by vojta on Thu, 11/26/2015 - 18:35

R is nowadays probably the most powerful tool for statistics of all types. There are plenty of modules available for work with molecular data. Those will be introduced during the course. Previous knowledge of R is useful, but not necessary. If there is at least one participant not speaking Czech, the course will be in English.

Course of work in Linux command line not only for MetaCentrum 2016

Submitted by vojta on Thu, 11/26/2015 - 18:25

Don’t be afraid of command line! It is friendly and powerful tool. Practically identical is command line also in Mac OS X, BSD and another UNIX-based systems, not only in Linux. Basic knowledge of Linux is not conditional. Course will be taught in Linux, but most of the point are applicable also for another UNIX systems like Mac OS X. Knowledge of Linux/UNIX is useful e.g. for working with molecular and another data. MetaCentrum is service provided by CESNET allowing access to huge computational capacity.

Phylogenetic marker development for target enrichment from transcriptome and genome skim data: the pipeline and its application in southern African Oxalis (Oxalidaceae)

Phylogenetics benefits from using a large number of putatively independent nuclear loci and their combination with other sources of information, such as the plastid and mitochondrial genomes. To facilitate the selection of orthologous low-copy nuclear (LCN) loci for phylogenetics in non-model organisms, we created an automated and interactive script to select hundreds of LCN loci by a comparison between transcriptome and genome skim data. We used our script to obtain LCN genes for southern African Oxalis (Oxalidaceae), a speciose plant lineage in the Greater Cape Floristic Region.

vojta Thu, 11/26/2015 - 17:11