I have done an alignment and used the -H option to dump the multiple hits as well as the -u option to dump the reads that do not map. However, after the alignment, I was interested in getting the numbers of hits in each category (# unique mapping reads, # reads that map to multiple places, and # reads that do not map). I converted the 'map' file to a 'txt' file and counted the number of lines (I got 8,335,894) and then I counted the lines in the non-mapping file (I got 4,575,039). However, this totals to the total number of reads that I started with (12,910,933)! What goes in the multi mapping file? I unzipped it, but cannot discern the format at all. Do the reads that map to multiple positions also go on the 'map' file?
-
CRISPR/Cas9 sparked the gene editing revolution for both research and therapeutics.1 But this system still showed severe issues that limited its applications. The most prominent were the heavy reliance on PAM sequences, delivery limitations, double-stranded breaks that prompt unintended edits and cell death, and editing inefficiency (both in targeting and in knock-in reliability).
Despite this, “CRISPR helped turn genome editing from a specialized technique into...07-31-2026, 11:01 AM -
Proteomics platforms are evolving rapidly, with advances in mass spectrometry and affinity-based approaches expanding what researchers can detect and at what scale. As the field moves toward deeper proteome coverage and clinical applications, scientists face an increasingly complex landscape of tools. This article will explore how researchers are navigating these choices to find the right platform for their work.
The systematic characterization of the human proteome has...07-20-2026, 11:48 AM -
Genomics studies in neuroscience face a special challenge due to the brain’s complexity and scarcity of samples. Mapping changes in cell type and state using conventional next-generation sequencing methods remains challenging. Advances in technologies like single-cell sequencing, spatial transcriptomics, and long-read sequencing have opened the door to deeper studies of the brain and diseases like Alzheimer’s, amyotrophic lateral sclerosis (ALS), and schizophrenia.
...07-09-2026, 11:10 AM