proper markdown is nice, eh?

README.md

@@ -3,14 +3,14 @@
 <a href="https://pypi.org/project/genome-grist/"><img alt="PyPI" src="https://badge.fury.io/py/genome-grist.svg"></a>
 <a href="https://github.com/dib-lab/pybbhash/blob/latest/LICENSE.txt"><img alt="License: 3-Clause BSD" src="https://img.shields.io/badge/License-BSD%203--Clause-blue.svg"></a>
 
-(1) download a metagenome
-(2) process it into trimmed reads, and make a [sourmash signature](https://sourmash.readthedocs.io/)
-(3) search the sourmash signature with 'gather' against sourmash databases, e.g. all of genbank
-(4) download the matching genomes from genbank
-(5) map all metagenome reads to genomes using minimap - `map_reads` and `extract_mapped_reads`
-(6) extract matching reads iteratively based on gather, successively eliminating reads that matched to previous gather matches - `extract_gather`
-(7) run mapping on “leftover” reads to genomes - `map_gather`
-(8) summarize all mapping results for comparison and graphing - `summarize_gather`
+1. download a metagenome
+2. process it into trimmed reads, and make a [sourmash signature](https://sourmash.readthedocs.io/)
+3. search the sourmash signature with 'gather' against sourmash databases, e.g. all of genbank
+4. download the matching genomes from genbank
+5. map all metagenome reads to genomes using minimap - `map_reads` and `extract_mapped_reads`
+6. extract matching reads iteratively based on gather, successively eliminating reads that matched to previous gather matches - `extract_gather`
+7. run mapping on “leftover” reads to genomes - `map_gather`
+9. summarize all mapping results for comparison and graphing - `summarize_gather`
 
 ## Why the name `grist`?