Pinned Repositories
alphafold
Open source code for AlphaFold.
bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
bioinformatic_kit
The python version is 2.7. This repository includes some script programs by myself.
bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
ChatGPT
🔮 ChatGPT Desktop Application (Mac, Windows and Linux)
cnvkit
Copy number variant detection from targeted DNA sequencing
copynumber
The source code is from //bioconductor.org/packages/3.16/bioc/src/contrib/copynumber_1.38.0.tar.gz. This repository adds hg38 and mm10 reference genome.
CVPR2024-Papers-with-Code
CVPR 2024 论文和开源项目合集
d2l-zh
《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被70多个国家的500多所大学用于教学。
scrapy_project
The python version is 2.7 . This repository mainly includes scrapy projects that i have done.
WortJohn's Repositories
WortJohn/scrapy_project
The python version is 2.7 . This repository mainly includes scrapy projects that i have done.
WortJohn/alphafold
Open source code for AlphaFold.
WortJohn/bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
WortJohn/bioinformatic_kit
The python version is 2.7. This repository includes some script programs by myself.
WortJohn/bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
WortJohn/ChatGPT
🔮 ChatGPT Desktop Application (Mac, Windows and Linux)
WortJohn/cnvkit
Copy number variant detection from targeted DNA sequencing
WortJohn/copynumber
The source code is from //bioconductor.org/packages/3.16/bioc/src/contrib/copynumber_1.38.0.tar.gz. This repository adds hg38 and mm10 reference genome.
WortJohn/CVPR2024-Papers-with-Code
CVPR 2024 论文和开源项目合集
WortJohn/d2l-zh
《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被70多个国家的500多所大学用于教学。
WortJohn/deepcpg
Deep neural networks for predicting CpG methylation
WortJohn/django-blog-tutorial-templates
一套简洁但优雅的 HTML 博客模板
WortJohn/facets
Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
WortJohn/htslib
C library for high-throughput sequencing data formats
WortJohn/hmmcopy_utils
Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.
WortJohn/learn_django
This repository is used for learning the web frame "Django"
WortJohn/Machine-Learning-Projects
This Contain Some Machine Learning Projects that I have done while understanding ML Concepts.
WortJohn/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
WortJohn/ML-NLP
此项目是机器学习(Machine Learning)、深度学习(Deep Learning)、NLP面试中常考到的知识点和代码实现，也是作为一个算法工程师必会的理论基础知识。
WortJohn/OpenMS
The codebase of the OpenMS project
WortJohn/opensource.guide
Community guides for open source creators
WortJohn/pindel
Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.
WortJohn/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.
WortJohn/python-Levenshtein
The Levenshtein Python C extension module contains functions for fast computation of Levenshtein distance and string similarity
WortJohn/scarHRD
WortJohn/sequenza
:exclamation: This is a read-only mirror of the CRAN R package repository. sequenza — Copy Number Estimation from Tumor Genome Sequencing Data. Homepage: https://sequenzatools.bitbucket.io, Mailing list: https://groups.google.com/forum/#!forum/sequenza-user-group Report bugs for this package: https://bitbucket.org/sequenzatools/sequenza/issues
WortJohn/sequenza-utils
The source code is from https://bitbucket.org/sequenzatools/sequenza-utils/src/master/docs/index.rst?mode=view . This repository add one feature which adds "-L" or "--target_file" parameter for bam2seqz subcommand. You can add a bed file through this parameter.
WortJohn/tcr-dist
Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
WortJohn/vt
A tool set for short variant discovery in genetic sequence data.