kocherlab / pipemake
A pipeline creation tool using Snakemake
☆11Updated this week
Alternatives and similar repositories for pipemake:
Users that are interested in pipemake are comparing it to the libraries listed below
- Teaching modules for Human Genome Variation Lab.☆20Updated 7 months ago
- Split a BAM file by haplotype support☆16Updated 7 years ago
- Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data☆18Updated 2 months ago
- Prioritizing Copy Number Variants (CNV) using Phenotype and Gene Functional Similarity☆16Updated 2 years ago
- Functions to compare a SV call sets against a truth set.☆29Updated 10 months ago
- A tool set to assess the quality of the per read phasing and reduce the errors.☆12Updated 4 years ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 2 years ago
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆23Updated 11 months ago
- Two pass alignment for long reads☆21Updated 3 years ago
- Flexible linear mixed model framework for Genome Wide Association Studies☆18Updated last week
- The Vertebrate Genomes Project Mitogenome Assembly Pipeline☆18Updated last year
- ☆15Updated 7 years ago
- Phasing reads with secondary alignments☆17Updated 3 months ago
- easy_sbatch - Batch submitting Slurm jobs with script templates☆17Updated 3 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 4 years ago
- A command line tool to compute mapping statistics from a BAM file☆23Updated 2 years ago
- This is the Haplotypo repository☆20Updated 9 months ago
- Quality assessment of de novo transcriptome assemblies from RNA-Seq data☆21Updated 4 months ago
- Automated Detection and Qualification of Differential Methylation☆11Updated last year
- Genotyping of segregating mobile elements insertions☆19Updated 3 years ago
- Codes for the Iso-Seq variant-calling paper☆11Updated last year
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆29Updated 2 months ago
- CLI to automate Nextflow pipeline testing☆12Updated 3 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆26Updated 5 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆14Updated 5 months ago
- Summarize and filter read alignments from multiple sequencing samples (taken as sorted BAM files)☆17Updated 4 months ago
- ☆24Updated 10 months ago
- Simultaneous multi-sample transcript assembler for RNA-seq data☆17Updated 2 months ago
- ☆16Updated last month
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆29Updated 2 months ago