bioinformatics-scripts

There are 184 repositories under bioinformatics-scripts topic.

  • HuffordLab/NAM-genomes

    Detailed bioinformatics scripts and methods used in the NAM genome paper.

    Language:R7814630

  • widdowquinn/find_differential_primers

    Code for design of diagnostic PCR primers, and metabarcoding markers.

    Language:Python6083325

  • bystrogenomics/bystro

    Natural Language Search and Analysis of High Dimensional Genomic Data

    Language:Python45622211

  • brianyiktaktsui/Skymap

    High-throughput gene to knowledge mapping through massive integration of public sequencing data.

    Language:Jupyter Notebook31513

  • flystar233/pyscript-bio

    生物信息学python代码，专注于重测序文本计算、处理

    Language:Python25206
  • sequencework

    fomightez/sequencework

    programs and scripts, mainly python, for analyses related to nucleic or protein sequences

    Language:Python24324

  • dvklopfenstein/ReactomePy

    Explore biomolecular pathways in Reactome from the command-line or a Python script

    Language:Python23104

  • vinuesa/TIB-filoinfo

    Talleres Internacionales de Bioinformática - Centro de Ciencias Genómicas, UNAM, Cuernavaca, México

    Language:Shell21105

  • robinvanderlee/positive-selection

    Scripts and procedures for detecting positively selected genes and codons in primates

    Language:Perl192016

  • Sydney-Informatics-Hub/Bioinformatics

    A suite of bioinformatics data processing and analysis pipelines, software, and training resources for common methods.

    17241

  • johnnytam100/pdb2uniprot

    A Python script to map PDB ID + chain ID to UniProt ID.

    Language:Python15122

  • SouthGreenPlatform/GeMo

    A mosaic genome painting tool for plant genomes

    Language:JavaScript1513151

  • alvesrco/pipecov

    This project proposes to contribute to fill the knowledge gap about Covid-19SARS-CoV-2 in Brazil and with the global knowledge about the pathogen. The scientific community and governments of other countries are looking for actions along these lines. The United Kingdom recently established a research network for genomic studies of SARS-CoV-2Covid-19 with a contribution of GBP 20 million (https://www.gov.uk/government/news/uk-launches-whole- genome-sequence-alliance-to-map-spread-of-coronavirus).

    Language:R14339

  • pwwang/biopipen

    A set of processes/pipelines for bioinformatics

    Language:R133105

  • ramsainanduri/split_multi_fasta

    Split multi fasta file into single fasta files

    Language:Python9208

  • lazappi/binf-scripts

    A collection of useful bioinformatics scripts.

    Language:Python8307

  • minesh1291/HowToBioinformatics

    :man_scientist: Analysis Pipelines and Useful Tools

    Language:R8201

  • tomarovsky/Biocrutch

    Various bioinformatics scripts

    Language:Python8101

  • fomightez/blast-binder

    Repo for running command line-based BLAST in Jupyter environment provided via Binder.

    Language:Jupyter Notebook7105

  • peterk87/filter_classified_reads

    Filter for reads from taxa of interest using Kraken2/Centrifuge classification results.

    Language:Python7321

  • amojarro/carrierseq

    a sequence analysis workflow for low-input nanopore sequencing

    Language:Shell6251

  • danangcrysnanto/bovine-graphs-mapping

    Comparison of sequencing read mapping to pangenome graphs

    Language:Jupyter Notebook6102
  • facepai

    emmawahl/facepai

    Scripts for executing a filtering, clustering and identification pipeline for eDNA samples.

    Language:Shell6100

  • fomightez/pdbepisa-binder

    Using data from PDBePISA with the convenience of Python and Jupyter.

    Language:Jupyter Notebook6101

  • PlatonB/bioinformatic-python-scripts

    Простые биоинформатические скрипты на Python 3. Удобная и гибкая замена Excel/Calc для решения повседневных рутинных задач вычислительной биологии.

    Language:Python6123

  • fallerlab/Ribo-ODDR

    Ribo-seq focused Oligo Design pipeline for experiment-specific Depletion of Ribosomal RNAs

    Language:Python5171

  • mauriceling/bactome

    Toolbox for Studying Bacteria, Archaea, and Complex Taxons

    Language:HTML52255

  • orionzhou/maize

    bioinformatic utility libraries in python

    Language:Python5202

  • ulelab/peka

    Find motifs enriched around prominent crosslinks

    Language:Python5382

  • cbp44/samflags

    Command line utility written in NodeJS to decode SAM flags to explain what they mean.

    Language:JavaScript4100

  • PollyTikhonova/ImGQfinder

    The official python version of ImGQfinder: http://imgqfinder.niifhm.ru/ A tool that finds gquadruplexes and imotifs.

    Language:Python4221
  • rbhXpress

    SamiLhll/rbhXpress

    A shell script that uses diamond to compute the reciprocal best hits between two proteomes in a rush.

    Language:Shell4100

  • surh/pbi

    Microbiome analysis for phosphate-defense interaction

    Language:R4242

  • V-Z/hybseq-scripts

    Set of scripts to process HybSeq target enrichment HTS data (on computing grids).

    Language:Shell4102

  • vimalkvn/riboplot

    RiboPlot includes programs to plot and output Ribo-Seq read counts from an alignment file (BAM format).

    Language:Python4111

  • alfonsomiguelcruz/pgc_btip_topone

    TopONE is a project that studies recombination events using topological data analysis. This was made in the PGC-BTIP 2024 internship by Alfonso Miguel Cruz and Claire Angelie Gabisay, and mentored by C.J. Palpal-latoc.

    Language:Python3100