Python
DDNS MinION VP1 pipeline
Public-health bioinformatics workflow for poliovirus surveillance and reporting.
ddns-minion-vp1-pipelineGitHub · adnanhaider81
Public code and research projects.
Bioinformatics projects maintained by Syed Adnan Haider, covering public-health surveillance, research publications and reproducible workflow demonstrations.
Research repositories
13 public projects · Directory checked 21 September 2026
Shell
Pakistan SARS-CoV-2 Nextstrain build
The reproducible project behind the maintained Pakistan SARS-CoV-2 community build.
pakistan-sars-cov-2-nextstrain-buildPython
Viral genomics Nextflow demo
A workflow demonstration using synthetic example data, containers and a report.
viral-genomics-nextflow-demoShell
Pathogen discovery pipeline
A public metagenomics project for cautious interpretation of sequencing evidence.
pathogen-discovery-pipelinePython
Polio whole-capsid NGS analysis
A public bioinformatics workflow supporting poliovirus genomic surveillance.
polio-capsid-ngs-analysisR
Polio phylodynamics
A reproducible phylogeographic analysis template with synthetic example data.
polio-wpv1-phylodynamicsPython
CV-A24v outbreak study
Companion repository for the 2023 acute haemorrhagic conjunctivitis outbreak study.
cva24v-ahc-2023-analysisPython
Dengue in Pakistan, 2023
Publication-linked analysis for the DENV-1 and DENV-2 genomic diversity study.
denv-2023-pakistan-analysisPython
RSV in Islamabad, 2022–2023
Companion repository for the study of respiratory syncytial virus in Islamabad.
rsv-islamabad-2022-2023-pipelinePython
Pakistan's fourth COVID-19 wave
Publication-linked repository for the SARS-CoV-2 study of Pakistan's fourth wave.
sarscov2-fourth-wave-2021-pakistanPython
Mumps in Pakistan, 2023
Publication-linked repository for the Pakistan mumps virus study.
mumps-2023-pakistan-analysisPython
Mpox and VZV study
Companion repository for the published 2023 Pakistan coinfection study.
mpox-vzv-coinfection-2023-pakistanPython
CCHFV study, Pakistan 2022
Companion repository for a published Crimean-Congo haemorrhagic fever virus study.
cchfv-segmented-analysis-2022-pakistanProfile, website and archive
- GitHub profile — introduction, selected repositories and professional links.
- Personal website — the source for this research and training portfolio.
- ncov — archived fork; the current Pakistan build is linked above.