Tally
|
Application data |
|
| Created by | van Dongen, Stijn |
|---|---|
| Biological application domain(s) | Sequencing |
| Principal bioinformatics method(s) | Sequence redundancy removal, Read pre-processing, Sequence contamination filtering |
| Technology | Illumina |
| Created at | EMBL-EBI |
| Maintained? | Yes |
| Input format(s) | (Compressed) FASTA, (Compressed) FASTQ, Customizable, Tab-delimited, Table with count data |
| Output format(s) | Fasta/q, Fasta.gz, Custom, Tab-delimited |
| Software features | Memory efficient and fast. |
| Programming language(s) | C |
| Licence | GPLv3 |
| Operating system(s) | Linux, UNIX, Mac OS X |
Summary: Tally is a program for deduplicating sequence fragments for both single and paired end input. Single reads, paired-end reads.
"Error: no local variable "counter" was set." is not a number.
Description
Tally is a program for deduplicating sequence fragments. It minimises memory usage by compressing sequences and using compact memory allocation techniques. A built-in parser allows a variety of input file formats and a simple specification language allows flexible output file formats. It can be made aware of paired-end reads, and it can handle degenerate sequence inserts intended to reveal amplification biases. Tally comes with reaper, a program for demultiplexing, trimming and filtering short read sequencing data.
Links
- Tally Manual [ edit link ]
- Tally Source code [ edit link ]
- Tally Source code [ edit link ]
- Tally Source code [ edit link ]
References
none specified
To add a reference for Tally, enter the PubMed ID in the field below and click 'Add'.
Search for "Tally" in the SEQanswers forum / BioStar or:
| Web Search | Wiki Sites | Scientific |
|---|---|---|
