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The Top 23 Perl Ngs Open Source Projects

Open source projects categorized as Perl Ngs
Impact Pipeline ⭐ 47
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
most recent commit 3 years ago
Hlaminer ⭐ 46
⛏HLA predictions from NGS shotgun data
most recent commit 4 months ago
Snpsplit ⭐ 43
Allele-specific alignment sorting
most recent commit a year ago
Mtbseq_source ⭐ 32
MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.
most recent commit 8 months ago
Pgcgap ⭐ 29
The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline
most recent commit a year ago
Bac Genomics Scripts ⭐ 28
Collection of scripts for bacterial genomics
most recent commit 4 years ago
Allelecount ⭐ 23
Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each allele [ACGT] at that location (given any filter settings)
most recent commit 3 years ago
Bio Viennangs ⭐ 23
A Perl extension and collection of utilities for Next-Generation Sequencing (NGS) data analysis
most recent commit 5 years ago
Bioinf2019 ⭐ 23
most recent commit 5 years ago
Toggle ⭐ 18
Toolbox for generic NGS analyses - A framework to quickly build pipelines and to perform large-scale NGS analysis
most recent commit a year ago
Tif ⭐ 16
Transposon Insertion Finder - Detection of new TE insertions in NGS data
most recent commit 2 years ago
Garfield Ngs ⭐ 16
GARFIELD-NGS: Genomic vARiants FIltering by dEep Learning moDels in NGS
most recent commit 5 years ago
Crispr Dav ⭐ 13
CRISPR NGS data analysis and visualization pipeline
most recent commit 5 years ago
Pcap Core ⭐ 12
Legacy, see cancerit/PCAP-core: NGS reference implementations and helper code for the IGCG/TCGA Pan-Cancer Analysis Project
most recent commit 7 years ago
Vicaller ⭐ 8
A software to detect virome-wide integrations
most recent commit 3 years ago
Innovation Impact Pipeline ⭐ 7
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
most recent commit 5 years ago
2019genomicsepidemiologyworkshop ⭐ 6
2019 Genomics Epidemiology Workshop at Academia Sinica
most recent commit 5 years ago
Pcap Core ⭐ 6
NGS reference implementations and helper code for mapping (originally part of ICGC-TCGA-PanCancer)
most recent commit 3 years ago
Ngspipeline ⭐ 5
NGS pipeline
most recent commit 9 years ago
Decontaminer ⭐ 5
DecontaMiner is a tool designed and developed to investigate the presence of contaminating sequences in unmapped NGS data. It can suggest the presence of contaminating organisms in sequenced samples, that might derive either from laboratory contamination or from their biological source, and in both cases can be considered as worthy of further investigation and experimental validation. The novelty of DecontaMiner is mainly represented by its easy integration with the standard procedures of NGS da
most recent commit a year ago
Alienomics ⭐ 5
Automated pipeline for HGT and contaminant detection in an assembled, annotated genome
most recent commit a year ago
Ephagen ⭐ 5
Estimate NGS Dataset qualitity in terms of its ability to detect mutations of predefined spectrum
most recent commit 5 years ago
Npg_qc ⭐ 5
QC checks and metrics for Illumina NGS data
most recent commit 3 months ago
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