Discover @lindenb Open Source projects

Pierre Lindenbaum (@lindenb)

lindenb

Stars
1,318
Global Rank 23,526 (Top 0.9 %)
Followers 532
Following 81
Registered about 16 years ago
Most used languages

Java
27.1 %

C
22.0 %

C++
16.9 %

JavaScript
11.9 %

XSLT 8.5 %

Makefile 3.4 %

Yacc 1.7 %

Awk 1.7 %

Nextflow 1.7 %

HTML
1.7 %

Web Ontology Language 1.7 %

TeX
1.7 %
Location 🇫🇷 France
Country Total Rank 693
Country Ranking

Nextflow 3

Yacc 3

Web Ontology Language 4

XSLT 4

Awk 19

C
54

Makefile 54

Java
83

TeX
179

C++
595

HTML
1,721

JavaScript
2,691

makefile2graph

Creates a graph of dependencies from GNU-Make; Output is a graphiz-dot file or a Gexf-XML file.

jvarkit

Java utilities for Bioinformatics

xslt-sandbox

My xslt sandbox

verticalize

Simple tool to verticalize text delimited files.

jsandbox

My java Sandbox

cclindenb

some C/C++ code....

magic

file command's magic pattern file for bioinformatics

jbwa

Java Bindings (JNI) for bwa

samtools-utilities

Utilities for Samtools ( http://samtools.sourceforge.net/ )

mod_bio

apache2 modules for bioinformatics.

j4make

java Makefile Graph parser

ngsxml

generating workflows with XML and XSLT

hts-rdf

Managing sequencing data with RDF

gazoduc-nf

Nextflow Pipelines

rbcf

R Bindings for htslib/bcf

courses

newicktools

Misc tools for newick format

gatk-ui

Graphical Interface for the Genome Analysis Toolkit (GATK)

jsvelocity

Processing structured data (json,yaml, tables, ...) with apache velocity

htsfuse

FUSE (Filesystem in Userspace) accessing remote files behind http. It was first designed for bioinformatics but can be used for general purpose.

mw4bio

MediaWiki extenstions for Bioinformatics

bionode

node.js for bioinformatics . Contains a REST server for the UCSC

bioman

manual pages for the bioinformatician

xml-patch-make

XML patch allowing GNU make to output the workflow as XML

igvfox

firefox addon : IGV (Integrative Genomics Viewer) control through mozilla Firefox

pubmedtrending

pubmed trending data

x11hts

X11 related utilities for hts

nf-htsjdk

nextflow plugin with htsjdk

htsjni

Native java bindings for htseq

lindenb.github.com

bcfselectgt

VCF/Bcf genotypes filtering using htslib

pivot

Pivot table for linux: wikipedia: pivot table is a data summarization tool found in data visualization programs such as spreadsheets or business intelligence software. Among other functions, a pivot-table can automatically sort, count total or give the average of the data stored in one table or spreadsheet. It displays the results in a second table (called a "pivot table") showing the summarized data.

htsguile

genprog

Genetic programming in C

ibddb

IBD database/query

keyvalueds

A C++ cmd-line based key-value datastore

knime4bio

Automatically exported from code.google.com/p/knime4bio

bioudf

Mysql User defined functions for Bioinformatics

splitfastq

split a pair of fastq files into a stream of interleaved fastq records.

vizbam

BAM visualization

semontology

Software Evaluation Metrics Ontology (SEMO)

Web Ontology Language

variationtoolkit

Automatically exported from code.google.com/p/variationtoolkit

greasemonkey

My Greasemonkey scripts

lindenb

Config files for my GitHub profile.

genmedsvcat

cmd-utils

Linux command line utilities

htsplusplus

Select variants from VCF/BCF spaced by a distance 'd'.

xsd-sandbox

XML Schema / JAXB sandbox

mozgv

XUL/Mozilla genome viewer

awk-sandbox

redditgetsdrawn

I draw, sometimes

hershey

Tools for the Hershey Vector Font

ngsproject

java server for NGS.

grid4drawing

Drawing Grid for artists

nextflow.lang

gtksourceview / gedit / nano syntax highlighting for **nextflow** files

pubmed0journal

Hide journals in NCBI pubmed

bioinfograph

Learning bioinformatics

xml4ngs

XML transformations for Next Generation Sequencing

monmakeamoi

Patch for GNU make v 4.0 including new functions

jsontribble

Tribble codec for JSON

java2graph

Export java model/UML of classes as a graph (graphiz dot, gexf/gephi ) First described in http://plindenbaum.blogspot.fr/2008/10/javadoc-is-not-enough-java2dia.html

ccsandbox

some C++ programs

bdbutils

Utilities for berkeleyDB

data

data, only data

rdftools

RDF tools in C++, small local storage