Pablo Marin-Garcia pamag

Molecular geneticist and Data scientist. Specialized in medical genomics databases, visualization and information systems.

pamag / drawdowns.ipynb

Created May 24, 2021 01:14 — forked from 8one6/drawdowns.ipynb

A review of various functions for computing drawdowns and rolling drawdowns of a given 1-d data structure (numpy array or pandas series).

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pamag / .vimrc

Created April 24, 2021 23:12 — forked from jmjuanes/.vimrc

My .vimrc file

	"
	" Installation:
	" 1. Set up vundle for vim (https://github.com/VundleVim/Vundle.vim):
	" $ git clone https://github.com/VundleVim/Vundle.vim.git ~/.vim/bundle/Vundle.vim
	" 2. Download this `.vimrc` file and save it in your home folder.
	" 3. Launch vim in your console and run :PluginInstall.
	"

	set nocompatible
	syntax on

pamag / get_fasta_from_gff.sh

Last active November 30, 2015 01:21

get fasta from gff with fasta block

	# create fasta file from gff with fasta blocks using bedtools
	# see rationale at the end

	gffFile=$1;
	tmpid=tmp_${$}

	# make tmp dir
	mkdir $tmpid
	echo entering to tempdir: >&2
	cd $tmpid

pamag / convert_tped_to_hapamp.pl

Created March 18, 2012 05:37

converting tped files into HapMap format

	#!/usr/bin/env perl


	=head1 [progam_name]

	description:
	- converts tped files to hapmap files.


	=head2 usage

pamag / gist:1238026

Created September 23, 2011 17:59 — forked from andrewyatz/gist:1237394

An example of extracting UTR coordinates from an Ensembl transcript

	use Bio::EnsEMBL::Registry;
	Bio::EnsEMBL::Registry->load_registry_from_db(
	-HOST => 'ensembldb.ensembl.org',
	-PORT => 5306,
	-USER => 'anonymous',
	-VERBOSE => 0,
	-DB_VERSION => 64
	);

	my $dba = Bio::EnsEMBL::Registry->get_DBAdaptor('human', 'core');