slowkow

slowkow

How to ssh to a remote server without typing your password

Save yourself a few keystrokes. Follow the steps below:

1. Run this Bash script on your laptop:

   #!/usr/bin/env bash
   

The hostname of your remote server.

slowkow

#!/usr/bin/env python
"""
HapMap.py
Kamil Slowikowski
February 25, 2014

# Quickly read the data and automatically compute allele frequencies.
    >>> from HapMap import HapMap
    >>> ceu = HapMap("CEU", "/media/blue/data/EPI511/HapMap3/")

slowkow

I want to open pdf files with program A unless it is stored in Zotero, in which case I want to open it program B.

1. Change the OS settings, so the default program for opening pdf files is the shell script shown below.
2. Set Zotero preferences to store files in "zotero-data".

Below, I use playonlinux to launch Foxit Reader for my Zotero pdf files because Foxit has nice highlighting and annotation features that I like to use on scientific articles. I use [evince][4] for all other pdf files (figures, books, documents, etc.)

slowkow

#' Create a quantile-quantile plot with ggplot2.
#'
#' Assumptions:
#'   - Expected P values are uniformly distributed.
#'   - Confidence intervals assume independence between tests.
#'     We expect deviations past the confidence intervals if the tests are
#'     not independent.
#'     For example, in a genome-wide association study, the genotype at any
#'     position is correlated to nearby positions. Tests of nearby genotypes
#'     will result in similar test statistics.

slowkow

#!/usr/bin/env python
"""
freq.py
Kamil Slowikowski
March 31, 2014

For each SNP, compute the reference allele frequency in all continental
populations and also in all subpopulations.

This script reads BEAGLE formatted genotypes from the 1000 Genomes Project.

slowkow

#!/usr/bin/env python
"""
gists.py
Kamil Slowikowski
April 1, 2014

Print an HTML list of your gists:

    ./gists.py

slowkow

function cd_dir_history()
{
    OLDPWD="$PWD"
    echo "# $(date) $USER -> $@" >> "$HISTFILE"

    command cd "$@"

    # If this directory is writable then write to directory-based history file
    # otherwise write history in the usual home-based history file.
    touch "$PWD/.dir_bash_history" 2>/dev/null \

slowkow

slowkow

#!/usr/bin/env bash
# notify-toggle.sh
# Kamil Slowikowski
# May 31, 2014
#
# Toggle libnotify notification bubbles that appear in the top-right corner
# of your screen.
# You can uncomment some lines to mute and unmute sound, too.
#
# Works on: