Repositories list

• GutMeta_analysis_scripts

  Public
  Python

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Oct 1, 2024Oct 1, 2024

• plasmid_web

  Public
  Vue

  •0•0•0•0•Updated Oct 1, 2024Oct 1, 2024

• plasmid_api

  Public
  Python

  •0•0•0•0•Updated Sep 29, 2024Sep 29, 2024

• StrInt

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 27, 2024Sep 27, 2024

• SPIDER

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Sep 25, 2024Sep 25, 2024

• SpecHLA

  Public
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes. Also, it supports both short- and long-read data.

  nanoporecancerphase+ 12immunityhla-typingpacbio-datalocal-assemblylohhaplotypereads-binning+ 5

  C++

  •

  MIT License

  •9•34•8•0•Updated Sep 25, 2024Sep 25, 2024

• CASCAT

  Public
  Python

  •0•1•0•0•Updated Sep 22, 2024Sep 22, 2024

• TCRclub

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Sep 3, 2024Sep 3, 2024

• LocalHGT

  Public
  Detect complete horizontal gene transfer (HGT) event rapidly and accurately from complex metagenomics data.

  metagenomicsmicrobiomehgt+ 6k-merstrainbacterial-genome-analysishorizental-gene-transferstructual-variationmobile-gene-element

  Python

  •1•11•0•0•Updated Aug 8, 2024Aug 8, 2024

• STAGUE

  Public
  Jupyter Notebook

  •

  MIT License

  •0•1•0•0•Updated Aug 6, 2024Aug 6, 2024

• crustdb_web

  Public
  Vue

  •0•0•0•0•Updated Aug 4, 2024Aug 4, 2024

• crustdb_api

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Jul 27, 2024Jul 27, 2024

• mRNA

  Public
  0•0•0•0•Updated Jun 20, 2024Jun 20, 2024

• DeepTAPE-1.0

  Public
  DeepTAPE is an advanced deep learning tool designed to provide reference diagnostics for SLE, leveraging pre-trained models and supporting custom training within its framework.

  Python

  •0•0•0•0•Updated May 24, 2024May 24, 2024

• PStrain-tracer

  Public
  Perl

  •0•1•0•0•Updated May 15, 2024May 15, 2024

• SPROUT

  Public
  Python

  •0•3•2•0•Updated May 7, 2024May 7, 2024

• GCNFrame

  Public
  This is a python package for genomics study with a GCN framework.

  genomeembeddinggcn

  Python

  •

  MIT License

  •7•38•0•0•Updated May 5, 2024May 5, 2024

• TCREmbedding

  Public
  Python

  •

  MIT License

  •1•0•0•0•Updated Apr 16, 2024Apr 16, 2024

• MHC

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Apr 7, 2024Apr 7, 2024

• Interaction-redundancy

  Public
  Deciphering microbial interactions with functional redundancy in human microbial community with partial information decomposition.

  MIT License

  •0•1•0•0•Updated Mar 31, 2024Mar 31, 2024

• CERNATAX

  Public
  Detecting ceRNA network mRNA-miRNA-lncRNA triplet axis

  Python

  •0•1•0•0•Updated Mar 30, 2024Mar 30, 2024

• scdb_api

  Public
  Python

  •0•0•0•0•Updated Mar 14, 2024Mar 14, 2024

• Smart5UTR

  Public
  MTAE-based 5UTR design model

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •4•5•0•0•Updated Jan 23, 2024Jan 23, 2024

• Ambigram

  Public
  Detecting complex breakage-fusion-bridge genome rearrangement with Ambigram

  C++

  •

  MIT License

  •0•4•2•0•Updated Jan 17, 2024Jan 17, 2024

• SMURF

  Public
  Python

  •

  MIT License

  •1•2•0•0•Updated Jan 11, 2024Jan 11, 2024

• Spoke

  Public
  A tool for analyzing how cells spatially SPOKE to each other.

  0•1•0•0•Updated Dec 16, 2023Dec 16, 2023

• PALACE

  Public
  A tool to assemble high-quality phages from metagenomes.

  C

  •

  MIT License

  •1•1•0•0•Updated Dec 11, 2023Dec 11, 2023

• SpecHap

  Public
  C++

  •

  Other

  •3•12•1•0•Updated Dec 6, 2023Dec 6, 2023

• PhageScope

  Public
  PhageScope: a well-annotated bacteriophage database with automatic analysis and visualization

  MIT License

  •0•2•0•0•Updated Nov 2, 2023Nov 2, 2023

• SPIDER-paper

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Oct 5, 2023Oct 5, 2023