20 skills found
gear-genomics / TracyBasecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
gear-genomics / IndigoIndigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
y9c / Cfutils🧬 Chromatogram File Utils, a package that integrates trace visualization, mutation calling and quality control for Sanger sequencing data.
akensert / Deep Learning Peak DetectionImplementation of a deep learning model for peak detection in chromatograms.
ngmsonn / TLC2PeakAnalyzing thin-layer chromatography (TLC) chromatograms
PNNL-Comp-Mass-Spec / MASICMASIC generates selected ion chromatograms (SICs) for all of the parent ions chosen for fragmentation in an LC-MS/MS analysis, characterizing the peak(s) in each SIC, computing peak statistics including elution time of the peak apex, peak area, and peak signal/noise. It can also extract reporter ion abundances (e.g. iTRAQ or TMT).
hyraxbio / HyraxAbifABIF parser, writer and generator
tvijverb / BEADS Baseline CorrectionBEADS baseline correction algorithm for (chemical) chromatograms - C++ implementation derived from X. Ning and L. Duval http://www.sciencedirect.com/science/article/pii/S0169743914002032?via%3Dihub
cghiban / Web Trace ViewerWeb-based trace/chromatogram viewer
TalusBio / Nf EncyclopediaA NextFlow pipeline for chromatogram library DIA proteomics workflows
mlibby / Hplc SimulatorHPLC Simulator -- simulates High Pressure (or High Performance) Liquid Chromatography with interactive chromatogram
akensert / Autoencoder Chromatogram EnhancementImplementation of a denoising Autoencoder to reduce noise in chromatograms.
hcji / KPIC2KPIC2: An Effective Framework for Mass Spectrometry-Based Metabolomics Using Pure Ion Chromatograms
MesquiteProject / ChromaseqA package for processing chromatograms and making base calls
alanrisal / QuickSangerQuickly run Sanger sequence alignments on batches of trimmed sequences. Batch Merge, Batch Align, all with cross verification of chromatogram AB1 data
Jianjie-He / Deconvolve SgRNAA Python script to deconvolve superimposed sequencing chromatograms of sgRNAs.
singjc / ArycalARYCAL: across run DIA-MS extracted ion chromatogram alignment written in Rust
zikozak92 / ABI Base Recall AppA Shiny app developed under R, To auto-correct ambiguities and N peaks within Sanger sequencing chromatograms.
rohankan / Ab1 File WriterWrites ab1 files — useful as a preprocessing step in bioinformatics workflows that utilize Sanger sequencing chromatogram data. Pending contribution to BioPython.
gear-genomics / SageSanger Trace Alignment
