SchwarzMarek

SchwarzMarek's Stars

• lcompilers/lpython

  Python compiler

  Language:C++1.5k341k158

• moshi4/pyCirclize

  Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)

  Language:Python72794343

• trevismd/statannotations

  add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.

  Language:Python65158072

• tseemann/snippy

  :scissors: :zap: Rapid haploid variant calling and core genome alignment

  Language:Perl46830581114

• mrabarnett/mrab-regex

  Language:C434852949

• karolzak/ipyplot

  IPyPlot is a small python package offering fast and efficient plotting of images inside Python Notebooks. It's using IPython with HTML for faster, richer and more interactive way of displaying big numbers of images.

  Language:Python41384641

• igvteam/igv-reports

  Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.

  Language:Python347157351

• schneebergerlab/plotsr

  Tool to plot synteny and structural rearrangements between genomes

  Language:Python27758328

• KosinskiLab/AlphaPulldown

  Language:Python199723846

• hillerlab/TOGA

  TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.

  Language:Python151915623

• barricklab/breseq

  breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA resequencing data. It is intended for haploid microbial genomes (<20 Mb). breseq is a command line tool implemented in C++ and R.

  Language:C++1431837721

• Ensembl/WiggleTools

  Basic operations on the space of numerical functions defined on the genome using lazy evaluators for flexibility and efficiency

  Language:C142186924

• ENCODE-DCC/chip-seq-pipeline

  ENCODE Uniform processing pipeline for ChIP-seq

  Language:Python12039253

• jstable/JSTable

  a lightweight, dependency-free JavaScript plugin which makes a HTML table interactive

  Language:JavaScript9382430

• legumeinfo/gcv

  Federating genomes with love (and synteny derived from functional annotations)

  Language:TypeScript40440112

• jeffersonfparil/compare_genomes

  A comparative genomics workflow using Nextflow, conda, Julia and R

  Language:Nextflow323205

• compgenomicslab/TreeProfiler

  tree visualization for tree + annotation data

  Language:Python255123

• karel-brinda/Phylign

  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)

  Language:Python2561684

• TurtleTools/portein

  2D portraits of 3D protein structures

  Language:Python15410

• Computational-conSequences/SequenceTools

  Programs used in the lab for various tasks

  Language:Perl116

• erinhwilson/promoter-id-from-rnaseq

  Computational framework to identify promoter sequences from RNA-seq datasets

  Language:Python10221

• loosolab/TF-COMB

  Transcription Factor Co-Occurrence using Market Basket analysis

  Language:Python104601

• VivianMonzon/Reciprocal_Best_Structure_Hits

  Language:Python930

• j-andrews7/pytfmpval

  Python bindings for the TFM-Pvalue program.

  Language:C++7324

• strevol-mpi-mis/RAFFT

  RAFFT: RNA structure and folding dynamics predictions using the fast Fourier transform

  Language:Python4201

• etiennelord/BRIDES

  Characterizing the evolution of an original network X into an augmented network Y by counting the number of Breakthroughs, Roadblocks, Impasses, Detours, Equal paths and Shortcuts (BRIDES) in the network Y.

  Language:R3202

• zhipenglu/Vicinal

  detection of ncRNA ends using chimeric reads from RNA-seq data

  Language:Python3101

• JensGeorg/rifi

  Language:HTML2

• Caeph/paperfly

  a tool for analysis of ChIP-seq or similar experiment without a reference genome

  Language:Python1100

• SinaedaA/AURTHO

  Scripts and Markdown files explaining the AURTHO methodology

  Language:Perl10