Ea-utils
|
Application data |
|
| Principal bioinformatics method(s) | Sequence trimming, Sequencing quality control |
|---|---|
| Created at | Expression Analysis Inc |
| Maintained? | Yes |
| Input format(s) | FASTQ |
| Programming language(s) | C++ |
| Licence | MIT |
Summary: FASTQ processing utilities
"Error: no local variable "counter" was set." is not a number.
Description
Suite of processing tools for sequencing output. Barcode demultiplexing, adapter trimming, etc.
Primarily written to support an Illumina based pipeline - but should work with any FASTQs.
fastq-mcf
Scans a sequence file for adapters, and, based on a log-scaled threshold, determines a set of clipping parameters and performs clipping. Also does skewing detection and quality filtering.
fastq-multx
Demultiplexes a fastq. Capable of auto-determining barcode id's based on a master set fields. Keeps multiple reads in-sync during demultiplexing. Can verify that the reads are in-sync as well, and fail if they're not.
fastq-join
Similar to audy's stitch program, but in C, more efficient and supports some automatic benchmarking and tuning. It uses the same "squared distance for anchored alignment" as other tools.
Links
References
none specified
To add a reference for Ea-utils, enter the PubMed ID in the field below and click 'Add'.
Search for "Ea-utils" in the SEQanswers forum / BioStar or:
| Web Search | Wiki Sites | Scientific |
|---|---|---|
