donutbrew

donutbrew's Stars

• mbadolato/iTerm2-Color-Schemes

  Over 325 terminal color schemes/themes for iTerm/iTerm2. Includes ports to Terminal, Konsole, PuTTY, Xresources, XRDB, Remmina, Termite, XFCE, Tilda, FreeBSD VT, Terminator, Kitty, MobaXterm, LXTerminal, Microsoft's Windows Terminal, Visual Studio, Alacritty, and many more

  Language:Shell24.9k3401086.4k

• onceupon/Bash-Oneliner

  A collection of handy Bash One-Liners and terminal tricks for data processing and Linux system maintenance.

  10.3k11214631

• seemoo-lab/openhaystack

  Build your own 'AirTags' 🏷 today! Framework for tracking personal Bluetooth devices via Apple's massive Find My network.

  Language:Swift9k134186476

• Dhghomon/easy_rust

  Rust explained using easy English

  Language:Shell8.1k14945381

• konstruktoid/hardening

  Hardening Ubuntu. Systemd edition.

  Language:Shell1.4k5289273

• markondej/fm_transmitter

  Raspberry Pi as FM transmitter

  Language:C++1.3k64164294

• pjedge/longshot

  diploid SNV caller for error-prone reads

  Language:Rust19459526

• aineniamh/snipit

  snipit: summarise snps relative to your reference sequence

  Language:Python15043028

• tseemann/snp-dists

  Pairwise SNP distance matrix from a FASTA sequence alignment

  Language:C12863728

• oschwengers/referenceseeker

  Rapid determination of appropriate reference genomes.

  Language:Python896255

• artic-network/rampart

  Read Assignment, Mapping, and Phylogenetic Analysis in Real Time

  Language:JavaScript79168533

• niemasd/TreeCluster

  Efficient phylogenetic clustering of viral sequences

  Language:Python7831010

• epinowcast/epinowcast

  Tools to enable flexible and efficient hierarchical nowcasting of epidemiological time-series using a semi-mechanistic Bayesian model with support for a range of reporting and generative processes.

  Language:R58526021

• UPHL-BioNGS/Cecret

  Reference-based consensus creation

  Language:Nextflow51521127

• niemasd/FAVITES

  FAVITES (FrAmework for VIral Transmission and Evolution Simulation)

  Language:Python385444

• jhuapl-bio/taxtriage

  TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomic NGS data. This flexible tool was developed with various use-cases of mNGS in mind.

  Language:Python325365

• tommyau/bamclipper

  Remove primer sequence from BAM alignments by soft-clipping

  Language:Perl3131610

• cdcepi/FluSight-forecast-hub

  Language:R282870

• DMU-lilab/pTrimmer

  Used to trim off the primer sequence from mutiplex amplicon sequencing

  Language:C216245

• reichlab/variant-nowcast-hub

  A repository to store COVID-19 variant nowcasts collected as a modeling hub.

  Language:R1555210

• LANL-Bioinformatics/MeGAMerge

  MeGAMerge (A tool to merge assembled contigs, long reads from metagenomic sequencing runs)

  Language:Perl14797

• chienchi/amplicon_coverage_plot

  interactive barplot for amplicon sequencing

  Language:HTML13665

• kjgriffin/LivestreamServiceSuite

  Tooling and support for controlling a BMD ATEM Switcher for livestreaming

  Language:C#92141

• artic-network/artic-base

  A base template for an implementation of an ARTIC install. This can be forked and modified for specific use-cases.

  7701

• greninger-lab/revica

  A reference-based viral consensus genome assembly pipeline

  Language:Nextflow7000

• jrjhealey/PYlogeny

  A tool for conversion from assorted NCBI Accessions to NCBI Taxonomy IDs

  Language:Python5113

• lskatz/annapotater

  Quick and dirty SNP annotator

  Language:Perl5340

• chienchi/ramifi

  Recombinant And Mixed-Infection Finder for SARS-CoV-2

  Language:HTML3302

• usnistgov/RGTM10169

  Information for RGTM 10169 (SARS-CoV-2 Synthetic RNA)

  2502

• Desperate-Dan/maskara

  A tool to create a coverage mask from BAM files to apply during consensus generation.

  Language:Python1