alimanfoo / pysamstatsLinks
A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.
☆195Updated 2 weeks ago
Alternatives and similar repositories for pysamstats
Users that are interested in pysamstats are comparing it to the libraries listed below
Sorting:
- ☆122Updated 5 months ago
- Tool for stripping adaptors and/or merging paired reads with overlap into single reads.☆145Updated 9 years ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆254Updated 6 months ago
- Match up paired end fastq files quickly and efficiently.☆153Updated last year
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆165Updated 2 years ago
- The DevNet project on github stores the PacBio DevNet website.☆116Updated 7 years ago
- AdapterRemoval v2 - rapid adapter trimming, identification, and read merging☆113Updated this week
- A structural variation pipeline for short-read sequencing☆200Updated last week
- ABRA2☆95Updated 3 years ago
- Very simple, pure python, BAM file reader☆79Updated 6 years ago
- Structural variation and indel detection by local assembly☆250Updated 4 months ago
- VarDict☆201Updated 2 years ago
- GATK RNA-Seq Variant Calling in Nextflow☆137Updated 3 years ago
- BAM Statistics, Feature Counting and Annotation☆152Updated last month
- Automatically exported from code.google.com/p/ea-utils☆96Updated 2 years ago
- NEAT read simulation tools☆101Updated 3 years ago
- pbsv - PacBio structural variant (SV) calling and analysis tools☆160Updated 10 months ago
- Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads☆108Updated 2 years ago
- An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infect…☆119Updated 2 years ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆175Updated last year
- A tool to identify, orient, trim and rescue full length cDNA reads☆83Updated 3 years ago
- Script to automatically create and run IGV snapshot batchscripts☆143Updated 3 years ago
- Hierarchical Alignment Format☆174Updated last month
- fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome☆157Updated 5 months ago
- Tools for plotting methylation data in various ways☆166Updated last month
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆143Updated 5 months ago
- Tools for processing and analyzing structural variants.☆156Updated 3 years ago
- Simple FASTQ quality assessment using Python☆109Updated 4 years ago
- Bayesian genotyper for structural variants☆136Updated 4 years ago
- accurate LiftOver tool for new genome assemblies☆146Updated last year