iqbal-lab-org

Iqbal Lab at EMBL-EBI

Pinned Repositories

clockwork
CRyPTIC data processing pipelines
Language:HTML32 8 6822
cobs
COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
Language:C++15 4 122
gramtools
Genome inference from a population reference graph
Language:C++92 8 16215
make_prg
Code to create a PRG from a Multiple Sequence Alignment file
Language:Python21 6 297
minos
Variant call adjudication
Language:Python16 4 445
pandora
Pan-genome inference and genotyping with long noisy or short accurate reads
Language:C++109 10 22314
pling
Plasmid analysis using rearrangement distances
Language:JavaScript28 5 421
simutator
Simulate mutations in genomes
Language:Python13 3 21
varifier
Variant call verification
Language:Python14 6 153
viridian
Language:Python15 7 775

iqbal-lab-org's Repositories

iqbal-lab-org/pandora
Pan-genome inference and genotyping with long noisy or short accurate reads
Language:C++109 10 22314
iqbal-lab-org/gramtools
Genome inference from a population reference graph
Language:C++92 8 16215
iqbal-lab-org/clockwork
CRyPTIC data processing pipelines
Language:HTML32 8 6822
iqbal-lab-org/pling
Plasmid analysis using rearrangement distances
Language:JavaScript28 5 421
iqbal-lab-org/make_prg
Code to create a PRG from a Multiple Sequence Alignment file
Language:Python21 6 297
iqbal-lab-org/minos
Variant call adjudication
Language:Python16 4 445
iqbal-lab-org/cobs
COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
Language:C++15 4 122
iqbal-lab-org/viridian
Language:Python15 7 775
iqbal-lab-org/varifier
Variant call verification
Language:Python14 6 153
iqbal-lab-org/BIGSI
BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data
Language:Python8 3 91
iqbal-lab-org/sprog
Species Probes Generator
Language:Python8 7 02
iqbal-lab-org/Mykrobe_tb_workflow
A workflow for analysis and resistance profiling of Mycobacterium tuberculosis nanopore data with Mykrobe
Language:Python7 4 93
iqbal-lab-org/cylon
Virus assembler from amplicon sequencing reads
Language:Python5 6 61
iqbal-lab-org/covid-truth-eval
Evaluate accuracy of covid assemblies where truth is available
Language:Python3 7 11
iqbal-lab-org/ivcfmerge
A utility to merge a large number of VCF files incrementally
Language:Python3 4 30
iqbal-lab-org/bigsi-ebi-api
API service for EBI's BIGSI
Language:Python2 1 0
iqbal-lab-org/covid-truth-datasets
SARS-CoV-2 datasets for testing pipelines
2 8 0
iqbal-lab-org/minos-paper-benchmarking
Language:Python2 7 02
iqbal-lab-org/QCovid
QC pipelines for sars-cov-2 sequence+consensus submitted to the ENA
Language:Jupyter Notebook2 5 2
iqbal-lab-org/cluster_vcf_records
Python package to cluster VCF records. Used by gramtools and minos
Language:Python1 4 44
iqbal-lab-org/paper_gramtools_nesting
Language:Python1 5 01
iqbal-lab-org/paper_pfalciparum_DBs
Language:Python1 5 01
iqbal-lab-org/py-cortex-api
Python API for cortex
Language:Python1 5 43
iqbal-lab-org/tb-sputum-project
Pipeline to analyse the TB sputum data
Language:Jupyter Notebook1 8 01
iqbal-lab-org/viridian_simulations_workflow
Workflow to simulate SARS-CoV-2 amplicons and reads.
Language:Python0 6 10
iqbal-lab-org/bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
Language:C1 0
iqbal-lab-org/neo4j_benchmark
Language:Jupyter Notebook4 0
iqbal-lab-org/pandora_paper_roc
Language:Jupyter Notebook2 0
iqbal-lab-org/paper_pandora2020_analyses
Language:Jupyter Notebook2 1
iqbal-lab-org/triphecta
Language:Python3 01