update STRling citation to Genome Biology

README.md

@@ -18,4 +18,4 @@ For more details able the algorithm check out our paper.
 
 If using STRling, please cite: 
 
-Dashnow H, Pedersen BS, Hiatt L, Brown J, Beecroft SJ, Ravenscroft G, et al. STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci [Internet]. bioRxiv. 2021. Available from: [doi:10.1101/2021.11.18.469113](https://doi.org/10.1101/2021.11.18.469113)
+Dashnow, H., Pedersen, B.S., Hiatt, L. et al. STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci. Genome Biol 23, 257 (2022). <https://doi.org/10.1186/s13059-022-02826-4>

docs/source/cite.rst

@@ -11,5 +11,4 @@ STRling paper
 
 For more details on the STRling algorithm, or if use use our software, please cite:
 
-Dashnow H, Pedersen BS, Hiatt L, Brown J, Beecroft SJ, Ravenscroft G, et al. STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci [Internet]. bioRxiv. 2021. Available from: `doi:10.1101/2021.11.18.469113 <https://doi.org/10.1101/2021.11.18.469113>`_
-
+Dashnow, H., Pedersen, B.S., Hiatt, L. et al. STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci. Genome Biol 23, 257 (2022). https://doi.org/10.1186/s13059-022-02826-4

docs/source/index.rst

@@ -10,6 +10,8 @@ STRling code: https://github.com/quinlan-lab/STRling
 
 STRling (pronounced like “sterling”) is a method to detect large STR expansions from short-read sequencing data. It is capable of detecting novel STR expansions, that is expansions where there is no STR in the reference genome at that position (or a different repeat unit from what is in the reference). It can also detect STR expansions that are annotated in the reference genome. STRling uses kmer counting to recover mis-mapped STR reads. It then uses soft-clipped reads to precisely discover the position of the STR expansion in the reference genome.
 
+Dashnow, H., Pedersen, B.S., Hiatt, L. et al. STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci. Genome Biol 23, 257 (2022). https://doi.org/10.1186/s13059-022-02826-4
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