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alignqc

Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and rarefraction curve analysis. The most basic analysis only requires a BAM file, and outputs a web browser compatible xhtml to visualize/share/store/extract analysis results.

awesome

Awesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

barcoding

Lima - Demultiplex Barcoded PacBio Samples

canu

A single molecule sequence assembler for genomes large and small.

ccs

CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)

chm13

Ultra-long reads for CHM13 genome assembly

demo

fiidau.github.io

Website for my tools and utilities

genomewarp

GenomeWarp translates genetic variants from one genome assembly version to another.

geo

hifiasm

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

humandiseaseontology

Repository for the Human Disease Ontology.

isoseq

IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads

isoseq_sa3nup

Documentation and Developers Code Base for Iso-Seq SMRTAnalysis 3.x and beyond

kallisto

Near-optimal RNA-Seq quantification

lab_2021

Repository for all the labs for Spring 2021

learning-bioinformatics-at-home

resources for learning bioinformatics

lihang-code

《统计学习方法》的代码实现

long-read-catalog

catalog for long-read sequencing tools

louplus

nextdenovo

Fast and accurate de novo assembler for third generation sequencing (TGS) reads

ngs-pipeline

By study this, it won't be costly or time-consuming to customize a NGS data analysis pipeline

pbbioconda

PacBio Secondary Analysis Tools on Bioconda

pyfastx

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

python-100-days

Python - 100天从新手到大师

readxl

Read excel files (.xls and .xlsx) into R 🖇

shiyanlou-code

sqanti2

SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3

sqanti3

Tool for the Quality Control of Long-Read Defined Transcriptomes