Parse samtools pileup file to get how many bases and what kind of bases are called
☆14Apr 30, 2024Updated last year
Alternatives and similar repositories for pileup2base
Users that are interested in pileup2base are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- picking up low allelic-fraction, somatic variants from tumor samples☆14Jan 4, 2018Updated 8 years ago
- Ktrim: an extra-fast and accurate adapter- and quality-trimmer for sequencing data☆31Feb 7, 2026Updated last month
- A set of scripts for the assembly of chloroplast genomes out of whole-genome sequencing reads☆12May 2, 2019Updated 6 years ago
- R package for RIVER (RNA-Informed Variant Effect on Regulation)☆12Mar 5, 2020Updated 6 years ago
- A tool for sample swap identification in high throughput sequencing studies☆10Mar 4, 2025Updated last year
- Tools for generating and decoding error-correcting DNA barcodes☆15Feb 15, 2022Updated 4 years ago
- multi_tbx: a simple tool for indexing VCF files and extract variant records for variant data stored in multiple VCF files.☆10Jan 7, 2022Updated 4 years ago
- Debarcer: A package for De-Barcoding and Error Correction of sequencing data containing molecular barcodes☆15Apr 28, 2021Updated 4 years ago
- Integrative analysis of complex structural variants☆22Sep 7, 2020Updated 5 years ago
- PathOS is a clinical application for filtering, analysing and reporting on NGS variants☆29Mar 30, 2021Updated 4 years ago
- Pipeline for the identification of cancer-related mutations from RNA-seq data☆14Aug 17, 2021Updated 4 years ago
- RNA-seq for Mendelian disease diagnostics: A hands-on tutorial through bioinformatic tools and workflows☆17Mar 7, 2022Updated 4 years ago
- A tool to examine duplicate read characteristics in a BAM file☆12Dec 8, 2017Updated 8 years ago
- A set of operations for manipulating strings in R, built on top of the stringr package and inspired by my struggles in trying to sensibly…☆21Feb 3, 2024Updated 2 years ago
- A needle plot for mutation data☆27Aug 31, 2017Updated 8 years ago
- A web tool that helps biomedical researchers understand how their work is being used by others, by analyzing the content in papers that c…☆13Oct 19, 2018Updated 7 years ago
- Viola is a flexible and powerful python package designed specifically for analysis of genomic structural variant (SV) signatures.☆28Jul 26, 2024Updated last year
- nanoNOMe (Nucleosome Occupancy and Methylome nanopore sequencing) Analysis☆20Nov 18, 2022Updated 3 years ago
- This is the GPress, a framework for querying GTF, GFF3 and expression files in a compressed form.☆11Oct 5, 2023Updated 2 years ago
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Aug 19, 2022Updated 3 years ago
- Compilation of a series of resources, readings, and tutorials for getting started in R. This workshop was designed for undergraduate rese…☆11Jul 25, 2025Updated 7 months ago
- Python function for TMB snake plots☆16Feb 12, 2026Updated last month
- Package for pairwise operations in {dplyr}.☆13Jul 1, 2022Updated 3 years ago
- My rstudio::conf 2018 presentation slides☆10Jan 16, 2023Updated 3 years ago
- ☆57Mar 31, 2020Updated 5 years ago
- Structural variant pipeline☆18Jun 25, 2020Updated 5 years ago
- Write-once-read-many table for large datasets.☆27Oct 5, 2023Updated 2 years ago
- A python interface for the CIViC db application☆11Feb 19, 2026Updated last month
- dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…☆11Feb 3, 2021Updated 5 years ago
- FinalVersions☆17Apr 3, 2017Updated 8 years ago
- ☆36Mar 16, 2021Updated 5 years ago
- Interact with CSV files as Python objects☆20Nov 5, 2013Updated 12 years ago
- visualize CNV data from targeted capture based sequencing data☆34May 10, 2021Updated 4 years ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- Benchmark structural variant calls against a reference set☆18Jan 26, 2026Updated last month
- Core utilities for single-cell RNA-seq☆12Apr 13, 2025Updated 11 months ago
- Software for Nanopore Analysis☆10Mar 14, 2018Updated 8 years ago
- The Exome Coverage and Identification Report displays the coverage of every target region in your capture design. It also displays regio…☆14Apr 22, 2015Updated 10 years ago
- A mosaic detecting software based on phasing and random forest☆70Dec 8, 2025Updated 3 months ago