mckellardw

mckellardw's Stars

• psf/black

  The uncompromising Python code formatter

  Language:Python40k2312.7k2.6k

• posit-dev/positron

  Positron, a next-generation data science IDE

  Language:TypeScript3.1k313.7k97

• ncbi/sra-tools

  SRA Tools

  Language:C1.2k55882258

• nanoporetech/dorado

  Oxford Nanopore's Basecaller

  Language:C++616301.3k75

• scverse/squidpy

  Spatial Single Cell Analysis in Python

  Language:Python4781154994

• fulcrumgenomics/fgbio

  Tools for working with genomic and high throughput sequencing data.

  Language:Scala3241942370

• isovic/racon

  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr.214270.116 Note: This was the original repository which will no longer be officially maintained. Please use the new official repository here:

  Language:C++2782123550

• BrooksLabUCSC/flair

  Full-Length Alternative Isoform analysis of RNA

  Language:Python2221338874

• Danko-Lab/BayesPrism

  A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression

  Language:HTML175710949

• fjossinet/RNArtist

  With RNArtist, you construct a collection of RNA structures that can be gathered into RNA families, projects,...

  Language:Kotlin15851910

• pachterlab/seqspec

  machine-readable file format for genomic library sequence and structure

  Language:Python11972917

• snap-stanford/SATURN

  Language:Jupyter Notebook11858520

• rajewsky-lab/openst

  Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab

  Language:HTML9483214

• Lattice-Automation/seqfold

  nucleic acid folding

  Language:Python9162114

• epi2me-labs/wf-transcriptomes

  Language:Nextflow89713835

• caleblareau/BuenColors

  R package of colors for the Buenrostro Lab

  Language:R825416

• COMBINE-lab/oarfish

  long read RNA-seq quantification

  Language:Rust787174

• epi2me-labs/pychopper

  cDNA read preprocessing

  Language:Python654749

• ksahlin/ultra

  Long-read splice alignment with high accuracy

  Language:Python6232510

• skovaka/uncalled4

  Language:HTML463324

• rajewsky-lab/spacemake

  Language:Python4166912

• epi2me-labs/wf-basecalling

  Language:Nextflow3766418

• broadinstitute/longbow

  Annotation and segmentation of MAS-seq data

  Language:Python204604

• dylkot/pyWNN

  Weighted Nearest Neighbors Analysis implemented in Python (pyWNN)

  Language:Jupyter Notebook15143

• Lioscro/ngs-tools

  Reusable tools for working with next-generation sequencing (NGS) data

  Language:Python11257

• christopher-vollmers/BC1

  Create consensus reads from UMI labeled long-reads

  Language:Python6102

• HiDiHlabs/SpatialLeiden

  Implementation of multiplex Leiden for analysis of spatial omics data

  Language:Python6540

• PacificBiosciences/skera

  SKERA - Deconcat PacBio reads

  6702

• Alexamk/minipath

  Language:Python12

• ntekasi/microSTRS

  Code repository associated with our recent work: Spatial RNA-Sequencing of Microbiome-Host Interactions at One Micron Resolution

  Language:Jupyter Notebook13