Karel B?inda

Login: karel-brinda

Company: Harvard University

Location: Cambridge, MA

Bio: Postdoctoral Researcher in CCDD at Harvard Chan School. Bioinformatics, Algorithms, Antibiotic Resistance, and Tactile Cartography.

Blog: http://brinda.cz

Blog: http://brinda.cz

Member of

1. Harvard Medical School - Department of Biomedical Informatics
2. null

Repositories

500lines

500 Lines or Less

algob-seminars

Abstracts of seminars organized by the AlgoB group.

Awesome-Bioinformatics

A curated list of awesome Bioinformatics libraries and software.

awesome-courses

:books: List of awesome university courses for learning Computer Science!

beuronske-umeni

null

bin

Miscellaneous scripts, configuration files, and sample documents

bloom

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

bwa

Burrow-Wheeler Aligner for pairwise alignment between DNA sequences

cmake-ext

CMake external projects.

cmake-ext-test

Test for https://github.com/karel-brinda/cmake-ext.

craigsift

Filter Craigslist housing offers from the Boston & Cambridge area

dive-into-machine-learning

Dive into Machine Learning with Python Jupyter notebook and scikit-learn

dwgsim

Whole Genome Simulator for Next-Generation Sequencing

dymas

Dynamic Mapping Simulator.

ext-smbl

null

gnuplot-svg-test

null

harvard-clusters-example

A simple Snakemake pipeline that can be run on all three Harvard clusters

homebrew-science

:microscope: Scientific formulae for the Homebrew package manager

hts-specs

Specifications of SAM/BAM and related high-throughput sequencing file formats

klib

A standalone and lightweight C library

language-python

Python package for Atom

laser-method

null

ligm-business-cards

LaTeX and OpenOffice templates for business cards.

linguist

Language Savant. If your repository's language is being reported incorrectly, send us a pull request!

metameda

MetaMedA: meta-analysis using PubMed

nanocall

An Oxford Nanopore Basecaller

NanoSim-H

Simulation of Oxford Nanopore reads. A fork of NanoSim.

NanoSimH_backup

Harvard fork of NanoSim, a simulator of Oxford Nanopore reads.

ococo

OCOCO: the first online consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.

oneliners

Useful bash one-liners for bioinformatics.

Packages

null

pyconfdict

Python Configuration Dictionary

rnf-spec

Specification of RNF (Read Naming Format).

rnftools

RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.

samsift

SAMsift ? advanced filtering and tagging of SAM/BAM alignments using Python expressions.

seedh

null

seer

sequence element (kmer) enrichment analysis

smbl

SMBL - SnakeMake Bioinformatics Library. Automatic installation of bioinformatics software in your SnakeMake pipelines.

svg2rlg

Automatically exported from code.google.com/p/svg2rlg

svg42pdf

null

tex-accessibility

null

tp-zpevnik

Zp?vník Technické p?estávky. Výsledné (automaticky generované) zp?vníky se nachází na http://karel-brinda.github.io/tp-zpevnik/.

tp-zpevnik-covers

null

ulysses

null

vim-snakemake

Snakemake syntax highlighting copied from the official repository. I didn't write this!

wgsim

Reads simulator

Commits To