samuell / scicommander
Run shell commands in a scientifically reproducible and robust way
☆15Updated 6 months ago
Alternatives and similar repositories for scicommander:
Users that are interested in scicommander are comparing it to the libraries listed below
- ☆19Updated 8 years ago
- Find Unique genomic Regions☆29Updated last month
- Kraken2 Server☆21Updated last year
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.☆23Updated 7 years ago
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- CAMITAX: Taxon labels for microbial genomes☆29Updated last year
- Hybridization probe design for targeted genomic sequencing of diverse and hypervariable viral taxa☆23Updated last year
- Rapid competitive read demulitplexer. Made with tries.☆24Updated last year
- Implementation of Krona to QIIME2☆15Updated 11 months ago
- Benchmark MinION assembler pipelines and publish your results in a heartbeat!☆15Updated 5 years ago
- Algorithm to divide a phylogenetic tree into segments based on phenotypes at the leaves of the tree☆25Updated 6 years ago
- Paint genomes with taxa-specific k-mer probabilities☆15Updated 2 years ago
- Summarize and filter read alignments from multiple sequencing samples (taken as sorted BAM files)☆17Updated 4 months ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆31Updated 2 years ago
- Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes☆31Updated 8 months ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- The repository keeps the files for an IPython notebook on about how to make a simple genome assembler using python☆31Updated 6 years ago
- ⛰ covtobed | Convert the coverage track from a BAM file into a BED file☆43Updated 2 years ago
- Paint genomes with taxa-specific k-mer probabilities☆8Updated 6 years ago
- ☆41Updated last week
- A command line tool to compute mapping statistics from a BAM file☆23Updated 2 years ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆22Updated this week
- A bioinformatics tool written in Rust to find palindromic sequences in DNA☆34Updated last month
- Tool for exploring sequence alignment algorithms☆13Updated 6 months ago
- Snakemake workflow management system and CLI generation tool☆52Updated last month
- Haplotype-aware genome assembly toolkit☆29Updated 5 years ago
- A FASTA/FASTQ format parser library☆20Updated last year
- Exploration of controlled loss of quality values for compressing CRAM files☆34Updated 2 years ago
- Making Snakemake workflows into full-fledged command line tools since 1999.☆51Updated 6 years ago