SeqMule: Automated human exome/genome variants detection
SeqMule takes single-end or paird-end FASTQ or BAM files, generates a script consisting of more than 10 popular alignment, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its configuration file.1531 days ago
SVEngine: Allele Specific and Haplotype Aware Structural Variants Simulator
...logenetic trees in cancer. SVEngine outpus alterred contigs in FASTA files, spiked-in variants in VAR files (see Manual), simulated short read in FASTQ files and aligned short reads...1394 days ago
RNA-seq workflow: gene-level exploratory analysis and differential expression
Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor packages. We will start from the FASTQ files, show how these were quantified...932 days ago
869 days ago
SeqFu: A Suite of Utilities for the Robust and Reproducible Manipulation of Sequence Files
...to manipulate and parse information from FASTA/FASTQ files, supporting gzipped inp...sp;interleave and de-interleave FASTQ files, to rename se...ring high performance analyses Supports FASTA/FASTQ files, also Gzip compressed...789 days ago
720 days ago
Quip: Aggressive compression of FASTQ, SAM and BAM files.
...and decrease data transfer times Quip compresses next-generation sequencing data with extreme prejudice. It supports input and output in the FASTQ and SAM/BAM fo...705 days ago
gfastats: The swiss army knife for genome assembly.
...ive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly f...nbsp;manipulation. gfastats also allows seamless fasta<>fastq<>gfa[.gz] conversion. I...598 days ago