defendant602's Stars
comprna/RATTLE
Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing
bcgsc/RNA-Bloom
:hibiscus: reference-free transcriptome assembly for short and long reads
pyinvoke/invoke
Pythonic task management & command execution.
sortmerna/sortmerna
SortMeRNA: next-generation sequence filtering and alignment tool
lindenb/jvarkit
Java utilities for Bioinformatics
jumpserver/jumpserver
An open-source PAM tool alternative to CyberArk. 广受欢迎的开源堡垒机。
ZhengXia/dapars
DaPars(Dynamic analysis of Alternative PolyAdenylation from RNA-seq)
nanoporetech/rerio
Research release basecalling models and configurations
nanoporetech/megalodon
Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.
nanoporetech/tombo
Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.
ksahlin/isONclust
De novo clustering of long transcript reads into genes
ksahlin/isONcorrect
Error correction of ONT transcript reads
GoekeLab/sg-nex-data
Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
comprna/SUPPA
SUPPA: Fast quantification of splicing and differential splicing
wdecoster/nanopack
An overview of all nanopack tools
shenwei356/taxonkit
A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV
jts/nanopolish
Signal-level algorithms for MinION data
The-Sequence-Ontology/Specifications
GFF and GVF specification documents
COMBINE-lab/salmon
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
mptrsen/Orthograph
Orthology prediction using a graph-based, reciprocal approach with profile hidden Markov models
shenwei356/seqkit
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
wdecoster/NanoPlot
Plotting scripts for long read sequencing data
nanopore-wgs-consortium/NA12878
Data and analysis for NA12878 genome on nanopore
agalwood/Motrix
A full-featured download manager.
biothings/biothings.api
BioThings API framework - Making high-performance API for biological annotation data
YuLab-SMU/clusterProfiler
:bar_chart: A universal enrichment tool for interpreting omics data
FlyPythons/DAGflow
Module to create DAG Task and Manage Task on SGE
Magdoll/cDNA_Cupcake
Miscellaneous collection of Python and R scripts for processing Iso-Seq data
sauloal/kgml2svg
Converts (Kegg's) KGML into SVG
ruanjue/smartdenovo
Ultra-fast de novo assembler using long noisy reads