High-quality integration for https://supermaker.ai/blog/how-to-make-the-viral-choose-your-bed-videos-with-ai/
Read and write the PLINK BED format, simply and efficiently.
Ultra-fast command-line tools for cell-free DNA fragmentomics analysis
Collapse BED intervals to their midpoints — outputs a 1-bp BED record at floor((start+end)/2)
Shift BED coordinates by a fixed offset — bedtools shift equivalent
pack a .bed into overlapping components
Sample random BED records using reservoir sampling — bedtools sample equivalent
get sequences from 2bit/fa using bed/gtf/gff
Count total base-pairs covered by BED intervals (sum of end - start)
bedpull - Pull the query sequence from bam or fasta references using a bed file
Count reads from multiple BAM files overlapping BED intervals — bedtools multicov equivalent
Randomly relocate BED intervals within a genome — bedtools shuffle equivalent