AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
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AltDatabase 2.1.0.1 4/20/17 Jul 20, 2017
Config 2.1.1 9/8/18 Sep 9, 2018
Documentation 2.1.0.1 4/20/17 Jul 20, 2017
benchmarking 2.1.0.1 4/20/17 Jul 20, 2017
build_scripts 2.1.1 8/8/18 Aug 8, 2018
import_scripts 2.1.1 9/8/18 Sep 9, 2018
misopy 2.1.1 10/11/17 Oct 11, 2017
stats_scripts 2.1.1 9/8/18 Sep 9, 2018
tests 2.1.1 1/17/17-PyPi-Freeze Jan 17, 2018
visualization_scripts 2.1.1 9/8/18 Sep 9, 2018
.gitignore 2.1.1 1/16/17 Jan 17, 2018
.gitignore_global 2.1.1 1/16/17 Jan 17, 2018
AltAnalyze.py 2.1.1 9/10/18 Sep 10, 2018
AltAnalyzeViewer.py 2.1.0.1 4/20/17 Jul 20, 2017
AltExonViewer.py 2.1.0.1 4/20/17 Jul 20, 2017
ExpressionBuilder.py 2.1.1 9/8/18 Sep 9, 2018
GO_Elite.py 2.1.1 9/14/17 Sep 14, 2017
InteractionBuilder.py 2.1.1 2/24/18 Feb 24, 2018
LICENSE Initial commit May 28, 2015
LineageProfiler.py 2.1.1 12/06/17 Dec 6, 2017
LineageProfilerIterate.py 2.1.1 9/10/18 Sep 10, 2018
README.md 2.1.1 7/20/17 Jul 20, 2017
RNASeq.py 2.1.1 8/8/18 Aug 8, 2018
R_interface.py 2.1.1 9/8/18 Sep 9, 2018
SQLInterface.py 2.1.0.1 4/20/17 Jul 20, 2017
UI.py 2.1.1 9/8/18 Sep 9, 2018
__init__.py 2.1.0.1 4/20/17 Jul 20, 2017
download.py 2.1.1 11/25/17 Nov 26, 2017
export.py version 2.1.0.1 9/25/16 Sep 26, 2016
gene_associations.py 2.1.1 3/25/18 Mar 26, 2018
header.txt 2.1.1 9/8/18 Sep 9, 2018
mappfinder.py 2.1.1 11/14/17 Nov 14, 2017
markerFinder.py 2.1.1 8/8/18 Aug 8, 2018
pyper.py update 6-14-2016 Jun 14, 2016
reorder_arrays.py 2.1.0.1 4/20/17 Jul 20, 2017
unique.py 2.1.1 3/25/18 Mar 26, 2018
update.py 2.1.1 8/8/18 Aug 8, 2018

README.md

AltAnalyze is an extremely user-friendly and open-source analysis tool that can be used for a broad range of genomics analyses. These analyses include the direct processing of raw RNASeq or microarray data files, advanced methods for single-cell population discovery, differential expression analyses, analysis of alternative splicing/promoter/polyadenylation and advanced isoform function prediction analysis (protein, domain and microRNA targeting). Multiple advanced visualization tools and à la carte analysis methods are supported in AltAnalyze (e.g., network, pathway, splicing graph). AltAnalyze is compatible with various data inputs for RNASeq data (FASTQ, BAM, BED), microarray platforms (Gene 1.0, Exon 1.0, junction and 3' arrays). This software requires no advanced knowledge of bioinformatics programs or scripting or advanced computer hardware. User friendly videos, online tutorials and blog posts are also available.

AltAnalyze documentation, stand-alone archives are provided at sourceforge as well as at github. For questions not addressed here, please contact us.

News Update 8/31/16

http://altanalyze.readthedocs.io/en/latest/images/AltAnalyzeOverview.gif