AkiShiroma

AkiShiroma's Stars

• griffithlab/rnaseq_tutorial

  Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

  Language:R1.3k18241622

• nf-core/rnaseq

  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

  Language:Nextflow882150646700

• deeptools/deepTools

  Tools to process and analyze deep sequencing data.

  Language:Python67736940208

• jdidion/biotools

  A list of useful bioinformatics resources

  581402169

• NVIDIA/hpc-container-maker

  HPC Container Maker

  Language:Python452236691

• rabix/composer

  Visual and code editor for Common Workflow Language

  Language:TypeScript301239772

• rrwick/Filtlong

  quality filtering tool for long reads

  Language:C++285143828

• chanzuckerberg/shasta

  [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads

  Language:C++2712310659

• a-slide/pycoQC

  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies basecaller (Albacore/Guppy)

  Language:Python26259941

• shenlab-sinai/ngsplot

  Quick mining and visualization of NGS data by integrating genomic databases

  Language:R255259465

• rrwick/Long-read-assembler-comparison

  Benchmarking of long-read assembly tools for bacterial whole genomes

  Language:Python17015414

• yfukasawa/LongQC

  LongQC is a tool for the data quality control of the PacBio and ONT long reads.

  Language:C14417617

• mortazavilab/TALON

  Technology agnostic long read analysis pipeline for transcriptomes

  Language:Python134514331

• xiaochuanle/NECAT

  Nanopore data assembler

  Language:C13485523

• tseemann/any2fasta

  Convert various sequence formats to FASTA

  Language:Perl12752417

• timkahlke/LongRead_tutorials

  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data

  12561029

• nanoporetech/taiyaki

  Training models for basecalling Oxford Nanopore reads

  Language:Python1153910142

• nanoporetech/pipeline-transcriptome-de

  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads

  Language:Python106213127

• cschin/Peregrine

  Peregrine: Fast Genome Assembler Using SHIMMER Index

  Language:Jupyter Notebook1018359

• biocorecrg/master_of_pores

  Nextflow pipeline for analysis of direct RNA Nanopore reads

  Language:Nextflow92911116

• almiheenko/AGB

  Interactive visualization of assembly graphs

  Language:JavaScript797127

• steineggerlab/conterminator

  Detection of incorrectly labeled sequences across kingdoms

  Language:C785237

• nanoporetech/qcat

  qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.

  Language:Python7719015

• kishwarshafin/helen

  H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)

  Language:Python696279

• roryk/tiny-test-data

  Super small biological datasets for unit testing

  Language:Python618327

• JanaSperschneider/FindTelomeres

  A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files

  Language:Python33219

• olga24912/SGTK

  Example of SGTK application for E.coli dataset:

  Language:JavaScript29672

• HadrienG/nanoflow

  :microscope: De novo assembly of nanopore reads using nextflow

  Language:Nextflow20883

• YoshiKawahara/NGS_HandsOnWorkshop

  Hands-on workshop on NGS data analysis @ NARO

  Language:Shell1110

• hwanglab/rnaseq_workshop

  Cleveland Clinic Bioinformatics Workshop for RNA-Seq data analysis

  6304