Notebook

2016-06-23

• dockerization
  • Created a successful hello world Octave container
  • Alpine: learning a few more tricks.
  • Docker guide
• Access to data: /p-sara1/integromics/data/metabolome [ONGOING]
• TOCSY [TODO]
• PASCAL: Introduction [TODO]

2016-06-22

• dockerization
  • Created a hello world Java container
• Sven's research proposal: detailed research plan

2016-06-21

• dockerization
  • images vs containers: create a docker image which runs as a container
  • boot2docker if you work on a mac
  • creating your first Dockerfile
    • dockerfile
    • Alpine running a minimal Linux image (5MB)
    • minimal Java image

2016-06-19/20

• Metabomatching: feature Import Metabolite Associations
  • Added a parameter to out file: "kegg_known_x_1"
  • Fixed associated_snips: the tag can be repeated, the keggid must be unique.
  • Read loma into matrix in one go rather than iterating over each line of the file.

2016-06-12/15

Metabolomics: from data to publication

2016-06-07

• Preparing for SIB's "Metabolomics: from data to publication"
  • LC-MS raw data
  • Multivariate analysis
  • In Situ Metabolomics

• R
  • intro
  • bnlearn R package (journal club)

• Open-ended brainstorming with Rosanna

2016-06-06

• Metabomatching: adding feature Import Metabolite Associations
  • done: waiting for code review w/ Rico

• Bayesian Networks: background reading for journal club

2016-06-02

• setsid [program] to fork a process

• Metabomatching: adding feature Import Metabolite Associations
  • creating functions
  • looping through structures

2016-06-01

• p-values vs. Bayes factors with Marco and Daniele

• Q-Q plots with Reyhan

• GIT and matlab

• "From Bench to Market" @ EPFL