This is a collection of code snippets, utilities and scripts I have written over decades as a technologist. I'm releasing them here to the public in the hopes that someone will find them as useful as I have.
Complex iptables deny-by-default firewall suitable for a server, single workstation or laptop, or a home or office LAN.
Octyne is a powerful IRC to Internet Data connection service.
Post-Transcriptional Exon Shuffling (PTES) Identification Pipeline
PTESFinder is a computational pipeline for identifying Post-transcriptional Exon Shuffling events from high-throughput RNAseq data. PTESFinder leverages the power of established RNASeq tools and systematically excludes all known classes of false positive structures by applying stringent filters designed to specifically target these false positives. PTESFinder compares alignment qualities of reads mapping to putative PTES structures with qualities of the same reads when mapped to genomic regions and canonically spliced transcripts. This approach increases the confidence in PTES supporting reads. Reads emanating from template-switching events are often characterised by large indels when aligned to the transcriptome. PTESFinder uses additional filters to exclude reads with ambiguous alignments around PTES exon-exon junctions, further increasing confidence in these supporting reads. PTESFinder identifies more PTES structures than other published methods whilst maintaining high specificity.
Components for bash scripts, autotools, and docbook by Eclipse/Ant
The bash-core-lib provides basic scripts and functions for the startup bootstrap and common usage of bash shell scripts. This comprises core scripts for the canonical representation of basic runtime information e.g a common syntax for the current OS name on various Linux, Unix, and BSD variants, including Cygwin on Windows. Additionally some basic shell functions for the bootstrap of scripts are provided. This includes the pure absolute path name resolution with elimination of symbolic links. Also functions for the search path resolution of libraries and the shell variable extenstion for further calls. This project is targeted as a core shell library and utility collection for developers. Thus an available common shell script collection pool and library set could be shared by multiple projects.
PyUnit and PyDev extensions for arbitrary Executables
The package 'epyunit' provides extensions for PyUnit and PyDev. * Extensions for PyUnit - Unittests for arbitrary executables. * Extensions for PyDev - Automation of search and load of pydevd.py The extensions are applicable from commandline and/or within Eclipse. Online manuals: - https://pythonhosted.org/epyunit/ PyPi repository: - https://pypi.python.org/pypi/epyunit Current application examples are: - bash-core - http://bash-core.sourceforge.net Nickname - Dromi https://en.wikipedia.org/wiki/Dromi
A browser for distributed data sources
xswifs stands for: cross SoftWare Interfaces. This project provide examples (snippets) for interfacing various software tools and languages with various mechanism. It has been created to help in HW/SW co-simulation and to provide benchmarks.
RTTI for Python Source Files based on inspect
The 'pysourceinfo' package provides basic runtime information on executed sourcefiles based on 'inspect' and additional sources.
Small text tools for code formatting of web pages, wikis etc.
Small text tools for code formatting of web pages, wikis etc. Interpreted scripting language for Unix tools word processing.