yafeng / proteogenomics_pythonLinks
python scripts for proteogenomics analysis
☆10Updated 5 years ago
Alternatives and similar repositories for proteogenomics_python
Users that are interested in proteogenomics_python are comparing it to the libraries listed below
Sorting:
- Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…☆35Updated last year
- IPAW: a Nextflow workflow for proteogenomics☆28Updated last year
- A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.☆46Updated 2 years ago
- Analysis pipeline for the GUIDE-seq assay.☆27Updated last week
- B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework☆66Updated this week
- Fast and flexible ORF finder☆73Updated 3 years ago
- A set of Shiny apps to provide interactive enrichment analysis and exploration of results.☆30Updated 3 weeks ago
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆105Updated 2 months ago
- PoGo is a proteogenomic tool which allows mapping of peptides identified through mass spectrometry to a reference genome through provided…☆11Updated 4 years ago
- MetaProteomeAnalyzer (MPA) software for analyzing and visualizing MS-based metaproteomics data.☆31Updated 4 years ago
- FlashFry: The rapid CRISPR target site characterization tool☆76Updated last year
- optimization of ribosome P-site positioning in ribosome profiling data☆52Updated 5 months ago
- An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)☆116Updated 6 months ago
- Analysis pipeline for the GUIDE-seq assay.☆78Updated 2 years ago
- Microbial analysis in TCGA data☆91Updated last year
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆139Updated 11 months ago
- Regression-based annotation of protein-coding sequences from ribosome profiling data☆32Updated 5 years ago
- A simple RNA-Seq differential gene expression pipeline using Nextflow☆102Updated last week
- Capturing protein-RNA interaction footprints from single-nucleotide CLIP-seq data☆32Updated 4 years ago
- Examples of TMT data analyses using R. Links to notebooks and repositories. Also a few spectral counting analyses.☆22Updated 3 years ago
- Webpage of the "Introduction to RNA-Seq: From quality control to pathway analysis - streamed" SIB course.☆15Updated 10 months ago
- Unsorted scripts for bioinformatics☆61Updated 4 years ago
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆215Updated 2 weeks ago
- Identify and quantify MHC eluted peptides from mass spectrometry raw data☆38Updated last week
- Quantitative analysis of native tRNA populations using direct RNA nanopore sequencing (Lucas*, Pryszcz* et al., Nat Biotech 2023)☆15Updated 10 months ago
- Example genomics data for tool developers☆116Updated last year
- Integration ribosome profiling - mass spectrometry☆15Updated 2 weeks ago
- A small-RNA sequencing analysis pipeline☆89Updated 2 months ago
- Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq☆81Updated 2 weeks ago
- Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders☆151Updated 2 weeks ago