TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
☆138Jan 28, 2026Updated 4 months ago
Alternatives and similar repositories for TPMCalculator
Users that are interested in TPMCalculator are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy …☆74Dec 4, 2024Updated last year
- BEDOPS: high-performance genomic feature operations☆369Apr 29, 2025Updated last year
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆144Aug 24, 2025Updated 9 months ago
- Compare different genome alignment tools using a wide range of genomes with different complexities.☆14Dec 3, 2022Updated 3 years ago
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 3 years ago
- SUPPA: Fast quantification of splicing and differential splicing☆304Nov 6, 2025Updated 7 months ago
- Intervene: a tool for intersection and visualization of multiple genomic region and gene sets☆147Oct 28, 2023Updated 2 years ago
- ⛰ covtobed | Convert the coverage track from a BAM file into a BED file☆44Nov 6, 2025Updated 7 months ago
- ☆15May 31, 2020Updated 6 years ago
- This repository contains the source code of the R package for EvoGeneX, a software to infer the mode of evolution from the gene expressio…☆29Dec 1, 2025Updated 6 months ago
- Customizable workflows based on snakemake and python for the analysis of NGS data☆406Updated this week
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆51Apr 9, 2021Updated 5 years ago
- Detecting sites of genomic enrichment☆201May 8, 2023Updated 3 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Tools to process and analyze deep sequencing data.☆761Jul 23, 2025Updated 10 months ago
- MACS -- Model-based Analysis of ChIP-Seq☆776May 6, 2026Updated last month
- ☆35Sep 28, 2020Updated 5 years ago
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 5 years ago
- Accurate and rapid RiboRNA sequences Detector based on deep learning☆121Feb 5, 2026Updated 4 months ago
- Scallop is a reference-based transcriptome assembler for RNA-seq☆94Apr 30, 2021Updated 5 years ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆471Apr 21, 2026Updated last month
- python module to plot beautiful and highly customizable genome browser tracks☆887Jul 10, 2024Updated last year
- Project Manager for NGS data analysis☆31May 19, 2026Updated 2 weeks ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆34Aug 18, 2025Updated 9 months ago
- Ultra Fast NGS Data QC Tool☆28Feb 14, 2021Updated 5 years ago
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆889Mar 11, 2026Updated 2 months ago
- C++ API & command-line toolkit for working with BAM data☆430May 18, 2025Updated last year
- Tool for the detection and quantification of alternative splicing events from RNA-Seq data.☆113Apr 13, 2026Updated last month
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆448Updated this week
- Simultaneous multi-sample transcript assembler for RNA-seq data☆17Dec 13, 2024Updated last year
- Artisanal 🤣 bioinformatics tools and pipelines in Scala☆20Jan 28, 2020Updated 6 years ago
- ☆13Nov 13, 2018Updated 7 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆856May 2, 2026Updated last month
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆275Mar 15, 2026Updated 2 months ago
- CoGe (Comparative Genomics) Platform☆46Dec 21, 2021Updated 4 years ago
- Integrated Variant Caller☆17Mar 15, 2018Updated 8 years ago
- Plot structural variant signals from many BAMs and CRAMs☆566Jul 13, 2024Updated last year
- HMMRATAC peak caller for ATAC-seq data☆100Nov 12, 2024Updated last year
- Transcript assembly and quantification for RNA-Seq☆513Updated this week