Projects in Awesome Lists by smithlabcode
A curated list of projects in awesome lists by smithlabcode .
https://github.com/smithlabcode/falco
A C++ drop-in replacement of FastQC to assess the quality of sequence read data
Last synced: 24 Apr 2026
https://github.com/smithlabcode/methpipe
A pipeline for analyzing DNA methylation data from bisulfite sequencing.
Last synced: 10 Jan 2026
https://github.com/smithlabcode/dnmtools
Tools for analyzing DNA methylation data
Last synced: 29 Oct 2025
https://github.com/smithlabcode/ribotricer
A tool for accurately detecting actively translating ORFs from Ribo-seq data
bioinformatics orfs ribo-seq ribosome ribosome-profiling ribosome-profiling-data translation translation-regulation
Last synced: 29 Oct 2025
https://github.com/smithlabcode/abismal
Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
bioinformatics bisulfite-sequencing mapping-algorithms
Last synced: 08 Mar 2026
https://github.com/smithlabcode/piranha
Piranha is a peak-caller for CLIP- and RIP-seq data
Last synced: 29 Oct 2025
https://github.com/smithlabcode/preseqr
An R package for estimating library complexity
capture-recapture library-complexity r r-package sequencing sequencing-coverage sequencing-library
Last synced: 29 Oct 2025
https://github.com/smithlabcode/riborex
Riborex: Fast and flexible identification of differential translation from Ribo-seq data
differential-translation riborex riboseq ribosome-profiling
Last synced: 29 Oct 2025
https://github.com/smithlabcode/ribotricer-results
Results and scripts for benchmarking ribotricer for translating ORF detection from Ribo-seq data
orf-detection riboseq ribosome-profiling translation
Last synced: 29 Oct 2025
https://github.com/smithlabcode/rseg
A software tool to identify dispersed epigenetic regions from ChIP-seq data
Last synced: 29 Oct 2025
https://github.com/smithlabcode/smurfseq_scripts
Scripts and some documentation for how we did CNV analysis using SMURF-seq reads and how we generated simulated data to evaluate mapping performance.
Last synced: 29 Oct 2025
https://github.com/smithlabcode/amordad
Amordad is a database engine for high dimensional data
Last synced: 29 Oct 2025
https://github.com/smithlabcode/zagros
Zagros is an algorithm for motif discovery in CLIP-seq data
Last synced: 29 Oct 2025
https://github.com/smithlabcode/epievo
Programs for simulating and inferring epigenome evolution.
Last synced: 29 Oct 2025
https://github.com/smithlabcode/sperm-methylome-aging-wgbs
Scripts, pipelines, summary data and figures for this project.
Last synced: 29 Oct 2025
https://github.com/smithlabcode/-deprecated-amrfinder
DEPRECATED: ACTIVELY MANAGED SOFTWARE IN METHPIPE REPOSITORY.
Last synced: 29 Oct 2025
https://github.com/smithlabcode/cread
Software tools for regulatory sequence analysis
Last synced: 29 Oct 2025
https://github.com/smithlabcode/.github
The base repo for the smithlabcode organization
Last synced: 26 Feb 2026
https://github.com/smithlabcode/bamxx
HTSlib wrapper (mostly for BAM/SAM) in C++.
Last synced: 29 Oct 2025