caitlin-f

caitlin-f's Stars

• kamranahmedse/developer-roadmap

  Interactive roadmaps, guides and other educational content to help developers grow in their careers.

  Language:TypeScript303k6.8k2.6k39.7k

• iamadamdev/bypass-paywalls-chrome

  Bypass Paywalls web browser extension for Chrome and Firefox.

  Language:JavaScript48.3k6889983.5k

• CSSEGISandData/COVID-19

  Novel Coronavirus (COVID-19) Cases, provided by JHU CSSE

  29.1k8653.8k18.4k

• Powerlevel9k/powerlevel9k

  Powerlevel9k was a tool for building a beautiful and highly functional CLI, customized for you. P9k had a substantial impact on CLI UX, and its legacy is now continued by P10k.

  Language:Shell13.5k215745942

• tidyverse/ggplot2

  An implementation of the Grammar of Graphics in R

  Language:R6.6k2994.1k2k

• rkern/line_profiler

  (OLD REPO) Line-by-line profiling for Python - Current repo ->

  Language:Python3.6k86137256

• mikolmogorov/Flye

  De novo assembler for single molecule sequencing reads using repeat graphs

  Language:C79730701169

• nextflow-io/awesome-nextflow

  A curated list of nextflow based pipelines

  57633289

• ruanjue/wtdbg2

  Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly

  Language:C5143025495

• pyranges/pyranges

  Performant Pythonic GenomicRanges

  Language:Python4471322147

• fritzsedlazeck/SURVIVOR

  Toolset for SV simulation, comparison and filtering

  Language:C++3641221446

• walaj/svaba

  Structural variation and indel detection by local assembly

  Language:C++2391713545

• mbhall88/rasusa

  Randomly subsample sequencing reads or alignments

  Language:Rust21764017

• ga4gh/benchmarking-tools

  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls

  Language:HTML193531647

• sanger-pathogens/ariba

  Antimicrobial Resistance Identification By Assembly

  Language:Python1722212555

• tseemann/nullarbor

  :floppy_disk: :page_with_curl: "Reads to report" for public health and clinical microbiology

  Language:Perl1362129437

• phac-nml/staramr

  Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

  Language:Python120712328

• xavierdidelot/ClonalFrameML

  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

  Language:C++1101015127

• ceefluz/radar

  An interactive tool for rapid analysis of diagnostic and antimicrobial pattern in R using Shiny

  Language:R10644105

• caitiecollins/treeWAS

  treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes

  Language:R96128019

• bcgsc/mavis

  Merging, Annotation, Validation, and Illustration of Structural variants

  Language:Python741416214

• jon-xu/scSplit

  Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples within a mixed population.

  Language:Python414289

• PATRIC3/mic_prediction

  Code for doing MIC predictions on genomes

  Language:Python36713

• Victorian-Bioinformatics-Consortium/nesoni

  High throughput sequencing analysis tools

  Language:Python306910

• ukhsa-collaboration/snapperdb

  Language:Python239255

• kwongj/contig-puller

  Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence

  Language:Python13241

• usnistgov/NIST_Micro_Genomic_RM_Data

  Language:R470

• afelten-Anses/VARtools

  scripts for SNPs/INDELs analysis

  Language:Python20

• pjeraldo/S_aureus_typing_methods

  Supplementary information and methods for the S. aureus typing manuscript

  Language:Jupyter Notebook1100

• sjbush/FP_paper

  Benchmarking datasets for the paper "Generalisable characteristics of false positive bacterial variant calls"

  Language:Perl1