sunbymoon Goto Github PK

novobreak

oss-browser

OSS Browser 提供类似windows资源管理器功能。用户可以很方便的浏览文件，上传下载文件，支持断点续传等。

panelcn.mops

CNV detection tool for targeted NGS panel data

picard

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

plasmaseq

Analyze CNVs of ctDNA

platypus

Platypus Variant Caller

pybedtools

Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)

pyensembl

Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl

pysam

Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.

python-lectures

qc3

QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.

rtcr

A pipeline for complete and accurate recovery of TCR repertoires from high throughput sequencing data.

samplot

Plot structural variant signals from many BAMs and CRAMs

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

scikit-bio

scikit-bio is an open-source, BSD-licensed, Python package providing data structures, algorithms, and educational resources for bioinformatics.

scnv

Single-cell Genome-wide CNV profiling

seekr

A library for counting small kmer frequencies in nucleotide sequences.

seqcap_processor

Bioinformatic pipeline for processing Sequence Capture data for Phylogenetics

seqtk

Toolkit for processing sequences in FASTA/Q formats

sickle

Windowed Adaptive Trimming for fastq files using quality

single_cell_workflow

A suggested workflow, and accompanying scripts, to assemble Single Amplified Genomes (SAGs) from MDA derived Hi/MiSeq (Overlapped) Paired-End Illumina Libraries.

sinvict

SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA

sitedossier-crawler

Crawler for sitedossier.com

somaticseq

An ensemble approach to accurately detect somatic mutations using SomaticSeq

sparkbwa

SparkBWA is a new tool that exploits the capabilities of a Big Data technology as Apache Spark to boost the performance of one of the most widely adopted sequence aligner, the Burrows-Wheeler Aligner (BWA).

tcr-analysis

Scripts and files that I use to analyse T cell receptor repertoire data, produced by deep-sequencing

tcrsequencing

Bulk TCR sequencing and analysis with MiXCR and Immunarch

the-first-month-practice-of-python

theta

Tumor Heterogeneity Analysis (THetA) is an algorithm that estimates the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data. Please note that the latest release is now called THetA2.

thousandvariantcallersrepo

Thousand Variant Callers Project Github Repo