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function [range, chr] = gene2range(gene, varargin)

%GENE2RANGE find the chromosome location of a gene.
%
%   [range, chr] = GENE2RANGE(GENE, ...), returns the coordinates of the gene
%           GENE according to reference genome hg19. The chromosome name or
%           number of the chromosome containing the gene is also returned.
%           Optionally, the coordinates can be extended to a flanking region
%           to the left and right of the gene.
%

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function [rsids, chromStart, chromEnd, chrom] = gene2snps(gene, varargin)
%GENE2SNPS find all SNPs lying within a given human gene.
%
%   [rsids, chromStart, chromEnd, chrom] = GENE2SNPS(GENE, ...), returns the
%           RSIDs of all SNPs lying within the human gene given by GENE,
%           according to reference genome hg38 and SNP database snp146. The
%           returned variable RSIDS is a cell array of strings specifying the
%           SNPs. Bounds for the chromosome locations of the returned SNPs are
%           returned in the variables CHROMSTART and CHROMEND. The chromosome on
%           which the gene lies is returned in the variable CHROM.

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function [k, theta, t, pval] = sgamfit(xs)
%SGAMFIT fits a shifted GAMMA distribution to a provided set of
%           observations. It uses a smart initialization for the MATLAB
%           constrained optimizer FMINCON to find the ML fit.
%
%   [K, THETA, T, PVAL] = SGAMFIT(XS), returns ML parameters for a
%           shifted GAMMA distribution fit to XS, along with the P-value for a
%           KS-test of the goodness of fit.
%
% Inputs:

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perl edit files in place:

perl -pi.orig -e 's/DATE/localtime/e'


Install a python script in your home directory using install.py:

easy_install --install-dir=$HOME/lib/