fnl/chemcheck

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Created over 11 years ago
Updated over 9 years ago

fnl/chemcheck

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a syntax checker for BioCreative IV CHEMDNER task annotations

syntok

Text tokenization and sentence segmentation (segtok v2)

segtok

Segtok v2 is here: https://github.com/fnl/syntok -- A rule-based sentence segmenter (splitter) and a word tokenizer using orthographic features.

pymonad

"fork" of PyMonad on BitBucket to change the ``*`` functor/composition operator to ``<<``

patricia-trie

a pure-Python PATRICIA trie implementation.

medic

a Python 3 command-line tool to maintain a DB mirror of MEDLINE (https://pypi.python.org/pypi/medic) - ALERT: As I have moved out of science and am working as a consultant now, this project might need a new maintainer once PubMed changes its XML format. Heroes?

progress_bar

an informative progress bar for Python 2+3 command-line tools

asdm-tm-class

Course material for the Madrid ASDM class on text mining (C09)

Jupyter Notebook

libfnl

Python 3 tools for data mining in molecular biology

classipy

A command-line tool to develop advanced text classifiers using SciKit-Learn.

sentence_splitter

check my new spliter - segtok

tokenizer

a concurrent, deterministic finite state tokenizer (for letter-based scripts)

txtfnnl

a UIMA-based text mining pipeline

SPECIES

a modified version of the SPECIES tagger

otplc

A tool to convert corpus annotations between the brat annotation and OTPL formats.

vimrc

my (Vim-centric) POSIX environment

cpp-project-template

A very basic C++ project structure using CMake, Catch2, and cxxopts.

go

Golang source code collection

bceval

BioCreative Evaluation Scripts and Library

bootstrap

jump-start a simple GNU C project

lexikos

a minimal acyclic deterministic finite state automaton (MADFA)

gnamed

a tool to manage a unified repository of gene and protein names, symbols, keywords, literature references, and species associations

word2numpy

A Python 3.0 port of word2vec.py, in itself a Python 2.7 port of word2vec

segmenter

scripts to pre-process plain-text: sentence segmentation, tokenization, and stemming

OnlineTaggerFramework

an online tagger wrapper for GATE that only spans one global sub-process per processing resource

fnl.github.io

my blog (http://fnl.es)

ibecs-to-omtd-transformer

A transformer that converts an IBECS XML file into an OMTD-SHARE corpus

couchpy

a python3 library to programmatically access CouchDB (written when there was none, "long ago"...)

libfsmg

A finite state machine library for pattern matching on generic types in Java sequence containers.