Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
β67Mar 14, 2024Updated 2 years ago
Alternatives and similar repositories for mmseq
Users that are interested in mmseq are comparing it to the libraries listed below
Sorting:
- personal genome constructorβ10May 29, 2025Updated 9 months ago
- Artisanal π€£ bioinformatics tools and pipelines in Scalaβ20Jan 28, 2020Updated 6 years ago
- The integrated pipeline for Indel detectionβ17Apr 29, 2018Updated 7 years ago
- A succinct colored dBG representationβ12Sep 11, 2018Updated 7 years ago
- Probabilistic single-cell pseudotime with Edward+Tensorflowβ12Oct 5, 2017Updated 8 years ago
- Algorithm for detecting alternative splicing in a population of single cells. See details in Welch et al., Nucleic Acids Research 2016: hβ¦β23Jul 7, 2016Updated 9 years ago
- Rapid sensitive and accurate read mapping via quasi-mappingβ90Jun 5, 2020Updated 5 years ago
- Code for the paper "A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes"β19Oct 29, 2019Updated 6 years ago
- Streaming algorithm for computing kmer statistics for massive genomics datasetsβ54Feb 18, 2020Updated 6 years ago
- β12Jun 12, 2023Updated 2 years ago
- Dynamic Multivariate Data Analysis and Visualization Platformβ41Nov 8, 2015Updated 10 years ago
- Software for clustering de novo assembled transcripts and counting overlapping readsβ76Feb 11, 2022Updated 4 years ago
- Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-appsβ124Nov 8, 2018Updated 7 years ago
- Simultaneous multi-sample transcript assembler for RNA-seq dataβ18Dec 13, 2024Updated last year
- GEM software suite (GEM, GPS, KMAC, KSM, RMD, etc.)β10Aug 14, 2018Updated 7 years ago
- Basic, no assumptions, multi-pileupβ24Mar 26, 2014Updated 11 years ago
- Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.β22May 29, 2018Updated 7 years ago
- A haplotype analysis toolkit for natural variation study.β31Oct 3, 2023Updated 2 years ago
- Materials presented at the BiocNYC meet-upβ12Nov 29, 2018Updated 7 years ago
- This repository contains relevant code and explanation for βLeveraging a phased pangenome to design ideal haplotypes for hybrid potato brβ¦β37Oct 29, 2025Updated 4 months ago
- BitSeq codeβ16Jun 21, 2021Updated 4 years ago
- a programme for visualization of short sequence alignment and path navigation in graphical pan-genomeβ26Jan 23, 2024Updated 2 years ago
- Exercises for training scientists to perform some RNA-seq analyses.β11Oct 7, 2019Updated 6 years ago
- Training material for intermediate R / Bioconductor coursesβ17Mar 15, 2023Updated 3 years ago
- C++ library for analysing and storing large-scale cohorts of sequence variant dataβ17Aug 27, 2019Updated 6 years ago
- software tools for haplotype assembly from sequence dataβ229Feb 9, 2025Updated last year
- SMBL - SnakeMake Bioinformatics Library. Automatic installation of bioinformatics software in your SnakeMake pipelines.β23Aug 19, 2017Updated 8 years ago
- β14Jan 20, 2016Updated 10 years ago
- β29Feb 17, 2021Updated 5 years ago
- Personal diploid genome creation and coordinate conversionβ30Apr 1, 2025Updated 11 months ago
- Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seqβ30Jan 6, 2021Updated 5 years ago
- Methods for finding associations between phenotypic and genomic differences between species using the Forward Genomics frameworkβ24Nov 29, 2022Updated 3 years ago
- Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classesβ31Jun 16, 2024Updated last year
- netSmooth: A Network smoothing based method for Single Cell RNA-seq imputationβ28May 15, 2024Updated last year
- Coronavirus (SARS-Cov-2) sequencing analysisβ10Oct 5, 2021Updated 4 years ago
- Calculation of distance metrics for matricesβ26Mar 1, 2019Updated 7 years ago
- Clone of the Bioconductor repository for the RUVSeq package, see https://bioconductor.org/packages/devel/bioc/html/RUVSeq.html for the ofβ¦β14Nov 22, 2022Updated 3 years ago
- β57Aug 11, 2022Updated 3 years ago
- genotyping by Mapping-free ALternate-allele detection of known VAriantsβ10Mar 6, 2023Updated 3 years ago