Releases: auerlab/biolibc-tools
Add deromanize command, minor enhancements
Add deromanize: Convert Roman numerals to Arabic in given column
fastx-stats: Report standard deviation of sequence length
Numerous improvements and bug fixes
Add vcf-downsample subcommand
Improvements to build system
extract-seq: Recurse to output subfeatures
Numerous other minor enhancements and fixes
New subcommands, numerous small fixes and enhancements
New commands:
fastx-stats: Report basic info on a FASTA/FASTQ file
ensembleid2gene: Report gene name associated with Ensmbl ID
Improvements to test scripts
Several minor bug fixes and enhancements
"blt" wrapper, new subcommands, several fixes and enhancements
Make all programs subcoimmands of "blt" to avoid potential comflicts with other applications.
(Similar to samtools, bedtools, etc.)
Add --version flag
New subcommands:
fastx-derep: Remove replicate reads from FASTA or FASTQ
fastq2tsv->fastx2tsv: Convert wrapped FASTA/FASTQ to TSV for easier searching and filtering
fasta2seq: Convert a FASTA stream to one long raw sequence
find-orfs: Locate the next start or stop codon in a sequence
vcf-search: Search a VCF file by chrom and pos
gff2bed: Convert GFF3 stream to BED
extract-seq: Extract a sequence from a `FASTA for a feature in a GFF
chrom-lens: Generate a TSV file containing chrom lengths for kallisto
Numerous minor fixes and enhancements
First release for packaging
Basic testing complete for fastq2tsv and fastq-dedup.