You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
Sc2ts stands for "SARS-CoV-2 to tree sequence" (pronounced "scoots" optionally)
4
-
and consists of
3
+
Sc2ts stands for "SARS-CoV-2 tree sequence" (pronounced "scoots" optionally) and consists of
5
4
6
-
1. A method to infer Ancestral Recombination Graphs (ARGs) from SARS-CoV-2
7
-
data at pandemic scale
8
-
2. A lightweight wrapper around [tskit Python APIs](https://tskit.dev/tskit/docs/stable/python-api.html) specialised for the output of sc2ts which enables efficient node metadata
9
-
access.
10
-
3. A lightweight wrapper around [Zarr Python](https://zarr.dev) which enables
11
-
convenient and efficient access to the full Viridian dataset (alignments and metadata)
12
-
in a single file using the [VCF Zarr specification](https://doi.org/10.1093/gigascience/giaf049).
5
+
1. A method to infer Ancestral Recombination Graphs (ARGs) from SARS-CoV-2 genome sequence data at pandemic scale.
6
+
2. A lightweight wrapper around [tskit Python APIs](https://tskit.dev/tskit/docs/stable/python-api.html) specialised for the output of sc2ts which enables efficient node metadata access.
7
+
3. A lightweight wrapper around [Zarr Python](https://zarr.dev) which enables convenient and efficient access to the full Viridian dataset (alignments and metadata) in a single file using the [VCF Zarr specification](https://doi.org/10.1093/gigascience/giaf049).
13
8
14
9
Please see the online [documentation](https://tskit.dev/sc2ts/docs) for details
15
-
on the software
16
-
and the [preprint](https://www.biorxiv.org/content/10.1101/2023.06.08.544212v3)
17
-
for information on the method and the inferred ARG.
10
+
on the software and the [preprint](https://www.biorxiv.org/content/10.1101/2023.06.08.544212v3)
11
+
for information on the method and an inferred ARG.
0 commit comments