seq2science

Automated preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and RNA-seq workflows.

• new workflow: (BETA) single cell RNA!

• bwa-mem2 default aligner for genomic workflows, instead of bwa-mem
• interactive deeptools correlation heatmaps with static dendrograms in multiqc report
• trackhub file permissions are set to 755 so to host the files online you don't have to change those anymore

• bug in chip/atac trackhub generation where peaks and bigwigs used the same name, resulting in collisions and a trackhub that does not want to load
• (literal) genome edge-case where taking the slop of peaks results in identical peaks. One of the duplicates is removed.
• IDR should work again