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@BackofenLab @usegalaxy-eu
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Mehmet Tekman

CV + Academia

Hey. This is a little static profile. It’s by far not everything, but I’ve included repos of mine that I either dedicated a lot of time to, or am proud in some teeny tiny way. Click the badges above for links to my public profiles.

[In Brief]

[In Essence]

Languages + Frameworks Daily Drivers





[In Detail]


Enterprise Software
  • tools-iuc - The tool recipe repository: 58 closed and 6 open pull-requests
  • galaxy - The core dev repository: 5 closed and 1 open pull-request
  • training-material - The teaching materials repository: 37 closed pull-requests
Linkage and Haplotype Analysis
Variant or Sequence Analysis
  • OVAS and OVAS-maker - Open-source Variant Analysis Suite, and ISO maker.
  • - Skeleton for NGS pipeline, now backbone of OVAS project.
  • bedtarget - Grabs regions of genetic context from UCSC databases and reformats them as BED files.
  • genepender - Annotates (often overlapping) BED-defined regions to variants in a VCF file. Used for providing a gene/exon context to variants.
  • funcannot - Annotates cDNA, protein, mutation type, and other funcational changes to variants in a genepender’d VCF file
Genome-wide Association Studies
  • MembranousScripts - Set of utilities used to perform basic allele testing and parallel processing of LocusZoom plots
C++ based
  • motiondetect - An FCam-based CImg motion-detector for Maemo devices. MSci Thesis.
  • PreciseChisq - An example curses program tied in with PAM authentication that executes upon (maxtry) failure
  • bamcover - Performs basic pileup statistics of BAM files, depth and coverage.
  • RefGeneStats - Human Genome Exon/Intron statistics from refGene
  • comparing-matrices-mine-grun - A comparison of the count matrices produced by Galaxy CelSeq2 workflow, and that by MPI perl scripts, particularly with attention paid to the number of repeating elements



Cycling, Snowboarding, Wandering. Usually do all in an ill-equipped care-free fashion. I should probably add something useful here. Oh well.


My pride and joy. Small and friendly community I love to contribute to.

General Packages
Org-Mode Packages
  • PAM-curses-warning-formatter - An example curses program tied in with PAM authentication that executes upon (maxtry) failure
  • iptables-autobanner - Checks journalctl logs for forced entry and adds malicious ip to the iptables ban list, run ideally with cron.
Games and Javascript Demos
  • Slidey - HTML5 Slides Creator and Editor
  • diaspora-installer - Installer for the BattleStart Galactica Diaspora mod of the FreeSpace2 game
  • runescape-motiondetector - Looks for mineable items in Runescape using OpenCV Blob detection, and autoclicks them in X11
  • P2 Raycast Demo - Raytracing test using Canvas and pixiJS
  • TreeDemo - Messing around with generational trees. For a much more professional outlook, see the Benchmark test in HaploForge.
  • PyFlogger - CLI python food logger and calorific content displayer
  • AlbumMaker - Automates anonymous album creation using a dragndrop interface with unix backend.
  • maemo-alarm - Commandline tool to interface with alarmd library on maemo.

  • Add teaching contributions
  • Add single cell projects


  1. HaploForge Archived

    HTML5 pedigree/haplotype explorer, featuring a rich selection of comparison tools.

    JavaScript 5 2

  2. A tool to sync a zotero library with a google drive folder via shareable links, cloud edition

    Python 11 2

  3. A package to pull external changes into an org-mode source block if that block is tangled to an external file

    Emacs Lisp 75 5

  4. Latex Poster Template for the MeInBio Consortium

    TeX 3 2

  5. A tree-like management tool for your org-mode files

    Shell 3

  6. 1
    (setenv "LANG" "en_GB.UTF8")
    ;; Check this out:
    ;; ----- BEGIN: Package Initialisation -----
    (setq package-archives
          '(("melpa" . "")

1,116 contributions in the last year

Apr May Jun Jul Aug Sep Oct Nov Dec Jan Feb Mar Apr Mon Wed Fri

Contribution activity

April 2021

Created 1 repository

Created a pull request in galaxyproject/training-material that received 5 comments

Add video transcripts to plates, batches, and barcodes slide deck

Convert the Plates, Batches, and Barcodes slide deck into a video

+142 −19 5 comments
Opened 10 other pull requests in 4 repositories
4 merged
3 merged
1 open 1 merged
1 merged
Reviewed 5 pull requests in 2 repositories
usegalaxy-eu/website 3 pull requests
galaxyproject/training-material 2 pull requests

Created an issue in galaxyproject/training-material that received 4 comments

Opened 1 other issue in 1 repository

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