quinlan-lab

Pinned Repositories

applied-computational-genomics
Applied Computational Genomics Course at UU: Spring 2020
Language:HTML945 89 8211
bedder-rs
an API for intersections of genomic data
Language:Rust74 4 50
bedqc
BED QC tool (in the making)
Language:HTML15 5 171
ccrhtml
A small repo for storing the code for making the files and html for CCRs.
Language:HTML22 8 85
hts-python
pythonic wrapper for htslib
Language:Python24 15 57
pathoscore
pathoscore evaluates variant pathogenicity tools and scores.
Language:Python21 10 168
sllobs-biostats
Language:HTML70 48 618
STRling
Detect novel (and reference) STR expansions from short-read data
Language:Nim62 7 499
vcf2db
create a gemini-compatible database from a VCF
Language:Python56 11 6013
vcftidy
normalize, left-align, trim, validate and clean VCF files
Language:Python20 14 26

quinlan-lab's Repositories

quinlan-lab/applied-computational-genomics
Applied Computational Genomics Course at UU: Spring 2020
Language:HTML945 89 8211
quinlan-lab/bedder-rs
an API for intersections of genomic data
Language:Rust74 4 50
quinlan-lab/sllobs-biostats
Language:HTML70 48 618
quinlan-lab/STRling
Detect novel (and reference) STR expansions from short-read data
Language:Nim62 7 499
quinlan-lab/vcf2db
create a gemini-compatible database from a VCF
Language:Python56 11 6013
quinlan-lab/ccrhtml
A small repo for storing the code for making the files and html for CCRs.
Language:HTML22 8 85
quinlan-lab/pathoscore
pathoscore evaluates variant pathogenicity tools and scores.
Language:Python21 10 168
quinlan-lab/ccr
Building the constrained coding regions (CCR) model
Language:Python16 6 37
quinlan-lab/bedqc
BED QC tool (in the making)
Language:HTML15 5 171
quinlan-lab/Snakemake_Tutorial
Language:Python5 4 01
quinlan-lab/ceph-dnm-manuscript
Code used for figure generation and statistical analysis for https://elifesciences.org/articles/46922
Language:Jupyter Notebook3 7 04
quinlan-lab/human-rae-manuscript
code used for figure generation and statistical analysis for manuscript
Language:Jupyter Notebook3 4 0
quinlan-lab/kmertools
Language:Python3 7 01
quinlan-lab/STRling-nf
Nextflow implementation of STRling data flow
Language:Nextflow3 4 12
quinlan-lab/transcriptionary
Language:Python2 4 0
quinlan-lab/covviz
Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
Language:HTML1 2 0
quinlan-lab/proj-mutator-mapping
Code for reproducing analysis and figures from https://elifesciences.org/reviewed-preprints/89096
Language:Python1 3 21
quinlan-lab/mutator-epistasis-manuscript
Language:HTML0 4 03
quinlan-lab/2022-10-11-Utah-Python
Language:HTML5 01
quinlan-lab/CEPH-K1463-TandemRepeats
Language:Jupyter Notebook1 0
quinlan-lab/covdist
simple coverage profile of aligned samples. useful for sequencing center feedback and topoffs.
Language:HTML2 0
quinlan-lab/exacresiduals
CCR model
Language:Python7 61
quinlan-lab/facets-nf
nextflow implementation of the facets data flow.
Language:Nextflow2 0
quinlan-lab/freebayes-nf
a better freebayes-parallel
Language:Nextflow2 0
quinlan-lab/idplot
compare sequences to a shared root reference sequence.
Language:HTML2 0
quinlan-lab/normo-vs-oligo-manuscript
Language:HTML
quinlan-lab/preon
Precision Oncology data workflow
Language:Nextflow7 0
quinlan-lab/smoove-nf
Nextflow implementation of the smoove workflow and other tools for SV calling and QC
Language:Python2 0
quinlan-lab/tmp
A temporary repository to transfer issues
2 0
quinlan-lab/uu-delphi-datascience
4 0