grepq - v1.6.4

(maintenance release)

• updated dependencies
• updated README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 6 months ago

grepq - v1.6.3

1.6.3 (maintenance release)

• updated dependencies
• updated README.md
• updated build.rs
• updated help.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 6 months ago

grepq - v1.6.2

(maintenance release)

• fixed DOI issue in JOSS paper

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 7 months ago

grepq - v1.6.1

(maintenance release)

• updates to error handling
• fixed clippy warnings for more idiomatic Rust

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 7 months ago

grepq - v1.6.0

(maintenance release)

• updated JOSS paper and README.md
• updtated dependencies

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 7 months ago

grepq - v1.5.9

(maintenance release) * removed Dockerfile support * corresponding updates to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 7 months ago

grepq - v1.5.8

• inclusion of canonical tetranucleotide output when writeSQL invoked
• corresponding updates to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 7 months ago

grepq - v1.5.7

(maintenance release) - updated two dependencies - updated README.md to clarify use of test.sh

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 8 months ago

grepq - v.1.5.6

1.5.6 (maintenance release)

• added build.rs
• updated README.md with new installation instructions

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 8 months ago

grepq - v1.5.5

1.5.5 (maintenance release)

• updated dependencies
• fixed typo in README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 8 months ago

grepq - v1.5.4

• improvement to command-line parsing when writeSQL is invoked
• updates to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 9 months ago

grepq - v1.5.3

• updates to documentation
• addition of two help scripts for SQLite output, summarise.sql and variants-as-json-array.sql

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 10 months ago

grepq - v1.5.2

• updates to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 10 months ago

grepq - v1.5.1

• updated testing scripts
• added export_fastq.sql to examples directory
• corresponding updates to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 10 months ago

grepq - v1.5.0

• added variants field to writeSQL command
• fixed summarise command performance regrssion
• corresponding updates to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 10 months ago

grepq - v1.4.9

• added writeSQL command
• corresponding updates to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 10 months ago

grepq - v1.4.8

• added summarise command
• corresponding updates to documentation
• added test.bats (TAP-compliant tests)

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 10 months ago

grepq - v1.4.7

• added support to bucket matched sequences to files
• fixed bug in tune subcommand that caused inlfated count output
• documentation updates

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 11 months ago

grepq - v.1.4.6

• documentation updates

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 11 months ago

grepq - v.1.4.5

• updates to several dependencies
• documentation updates

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 11 months ago

grepq - v.1.4.4

• Support for named variants
• Corresponding changes to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 11 months ago

grepq - v1.4.3

• Addition of the --all option to output all variants to matches.json
• Corresponding changes documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 11 months ago

grepq - v.1.4.2

Addition of variants output to matches.json Corresponding changes to documentation

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 11 months ago

grepq - v1.4.1

• Minor changes to README, correcting an error in first table and updating runtimes and speedups for v.1.4.0 of grepq.

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 12 months ago

grepq - v.1.4.0

• Inclusion of unit tests and benchmarks via cfg(test) & criterion
• Updates to README.md, --help, cookbook.sh and cookbook.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 12 months ago

grepq - v.1.3.9

• correction of formatting error in README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 12 months ago

grepq - v1.3.8

• support for zstd compression
• corresponding updates to README.md, --help, cookbook.sh and cookbook.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 12 months ago

grepq - v1.3.7

• minor updates to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 12 months ago

grepq - v.1.3.6

• faster gzip
• improved README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 12 months ago

grepq - v.1.3.5

• Support for FASTA output
• Minor updates to test.sh and README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch 12 months ago

grepq - v.1.3.3

Minor improvements to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.3.1

Updates to help text and README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.3.0

• Updates to README.md
• Updates to cookbook.md
• Addition of cookbook.sh

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.2.8

Addition of cookbook.md Updates to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.2.7

• IUPAC support
• bug fixes
• improved README and help text

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.2.6

• minor updates to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.2.5

• Addition of predicates to filter on header field (with regex), minimum sequence length, and minimum quality score (supports Phred+33 and Phred+64)
• No longer need to specify -j for JSON pattern files
• Updates to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.2.4

Minor updates to README

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.2.3

Minor updates to README

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.2.2

Minor changes to README and help text

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.2.1

Updates to README

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.1.9

Added JSON support for pattern files and output of tune subcommand.

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.1.8

Added gzip support for reading and writing of FASTQ files

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.1.7

Minor updates to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.1.6

Added a CITATION.cff file to repo

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.1.5

Release of grepq v1.1.5 Parallelised all by the tune subcommand, achieving significant speedups.

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.1.4

Fixed preprint link in README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.1.3

Added SARS-CoV-2 example to README

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.1.2

Support for inverted matches!

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.1.1

Updates to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.1.0

Update to README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.0.9

• Added the tune subcommand
• Reorganized the code to make it more modular and easier to maintain
• Changes to -h [--help] and README.md

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v.1.08

Minor updates to README and help text

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.0.7

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago

grepq - v1.0.4

First release of grepq.

Scientific Software - Peer-reviewed - Rust
Published by Rbfinch about 1 year ago