Bioinformatic courses by Biologists for Scientists

General Description of our course Philosophy

Our bioinformatic courses are specially tailored for interested scientists who have no or minor particular insight in using Linux, statistics or programming languages like R. We however assume, that you have at least basic knowledge of the respective biological theory and technique. This does not exclude that we also discuss relevant biological aspect, however it will not be covered by theoretical parts of the courses.
Our courses are usually split into 4 modules of, 3 modules a 2 hours and the last module with 1 hour. Course hours are from 9 am to 18 pm, with one hour lunch break and two half an hour coffee breaks. This sums up to 9 hours course with 7 hours active training.

We want that you will be able to analyse your data by yourself after our courses. We want you to practice and therefore we try to keep passive theoretical parts as light as possible. We try to keep the hands-on time over 80% of the actual training time. This does not exclude that we discuss theory during our practice. Of course we want you to get all the little tricks and background knowledge we collected over the last years analysing biolgical data.
Raspberry Pi 2
You will work on a brand new Raspberry Pi 2. It is brand new, since you will take your Pi 2 back home after your course. This helps you to directly start practicing, what you learned, since you take all the data, databases, scripts, commands, log files and documentation we used with you. And if you haven´t had a linux machine at hand, then you will have it. You can connect your Pi 2 to any computer monitor or television with HDMI input.

Working on the Raspberry Pi 2 will not limit our course program. We are using the same tools and programs we are using on our big workstations. The only limitation is, that instead of working on the whole Genome we will work on one selected chromosome. Good news is, that it does not change the commands, we just use different references. That is to say, you will be able to work on whole genome level later without problems.

Included in the course fee is the training itself, one Raspberry Pi 2, a complete course script (pdf, no print-out), a certificate (printed nicely), get together dinner on day 1 in a traditional Spanish tavern, biscuits and coffee.
Maximum number of participant: 10. Minimum number of participants: 3

Upcoming courses

2 days course (total practice time 15 hours)
On demand we will include a third day covering Single Cell Analysis or Fusion Transcripts (additional costs will apply)
Pricing
Students: 950 Euro   Academics: 1250 Euro   Non-Academics: 2400 Euro
 21% VAT not included
Program
Day 1:
Module 1: Linux: Tool installation, command line usage, very useful tricks. (2 hours)
Module 2: RNA-Seq raw data: FastQ files, other raw sequencing formats, quality control, raw data manipulation (trimming, filtering …) (2 hours)
Module 3: Alignment: Obtaining reference sequences, alignment using STAR and Tophat2 (2 hours)
Module 4: Alignment II: Sorting, indexing using Bamtools, alignment quality control (1 hour)
Day 2
Module 1: Quantification on gene and transcript level using Salmon, gene and transcript databases (2 hours)
Module 2: An introduction into R for RNA-Seq analysis, Normalization and quality control of the obtained expression data.
Module 3: Statistics; Visualisation on read level.
Module 4: Alternative Splicing
2 days course (total practice time 14 hours)
Pricing
Students: 900  Euro Academics: 1200 Euro  Non-Academics: 2350 Euro
 21% VAT not included
Program
Day 1:
Module 1: Linux: Tool installation, command line usage, very useful tricks. (2 hours)
Module 2: RNA-Seq raw data: FastQ files, other raw sequencing formats, quality control, raw data manipulation (trimming, filtering …) (2 hours)
Module 3: Alignment: Obtaining reference sequences, alignment using BWA and Bowtie2 (2 hours)
Module 4: Alignment II: Sorting, indexing using Bamtools, alignment quality control (1 hour)
Day 2:
Module 1: Visual inspection using a genome browser; peak calling, peak quality control and peak filtering (2 hours)
Module 2: Transcription factor binding site prediction (de-novo and known TFBS models) (2 hours)
Module 3: Annotation of peak events with gene annotation. Enrichment analysis of targeted genes.
2 days course (total practice time 15 hours)
Pricing
Students: 950 Euro  Academics: 1250 Euro  Non-Academics: 2400 Euro
21% VAT not included
Program is coming soon. Please send us a mail if you want to be informed about the course.

For any question or registration please contact us via our contact form or connect with us on linkedIn or Google+ (below in the footer)

General information about our courses

  • The full course fee has to be paid before the starting date
  • 100% refund will be paid until 6 weeks before course starting
  • 60% refund will be paid until 2 weeks before course starting
  • No refund will be paid starting from 2 weeks before the first course day
  • Academics must supply a valid institutional email address
  • Accommodation is not included in the price. Please let us know, if you need assitance. We do have very nice suggestion in all price categories
  • Lunch is not included. We however have nice restaurants in the surrounding and we organize you a great deal