Fix typos and doc formatting

PiperOrigin-RevId: 702568997
google · Dec 4, 2024 · 5e95f17 · 5e95f17
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diff --git a/README.md b/README.md
@@ -41,7 +41,7 @@ DeepVariant supports germline variant-calling in diploid organisms.
     [Mapped with BWA](docs/pangenome-aware-wes-bwa-case-study.md).
 
 We have also adapted DeepVariant for somatic calling. See the
-[github.com/google/deepsomatic](DeepSomatic) repo for details.
+[DeepSomatic](https://github.com/google/deepsomatic) repo for details.
 
 Please also note:
 
@@ -113,13 +113,12 @@ To see all flags you can use, run: `docker run
 google/deepvariant:"${BIN_VERSION}"`
 
 If you're using GPUs, or want to use Singularity instead, see
-[Quick Start](docs/deepvariant-quick-start.md) for more details or see all the
-[setup options](#deepvariant_setup) available.
+[Quick Start](docs/deepvariant-quick-start.md) for more details.
 
 If you are running on a machine with a GPU, an experimental mode is available
 that enables running the `make_examples` stage on the CPU while the
  `call_variants` stage runs on the GPU simultaneously.
-For more details, refer to the [Fast Pipelione case study](docs/deepvariant-fast-pipeline-case-study.md).
+For more details, refer to the [Fast Pipeline case study](docs/deepvariant-fast-pipeline-case-study.md).
 
 For more information, also see:
 
@@ -205,7 +204,7 @@ post on
 ### Prerequisites
 
 *   Unix-like operating system (cannot run on Windows)
-*   Python 3.8
+*   Python 3.10
 
 ### Official Solutions
 

diff --git a/docs/trio-merge-case-study.md b/docs/trio-merge-case-study.md
@@ -262,12 +262,11 @@ do
 done
 ```
 
-| Sample | [3]ts | [4]tv | [5]ts/tv | [6]ts (1st | [7]tv (1st | [8]ts/tv (1st |
-:        :       :       :          : ALT)       : ALT)       : ALT)          :
-| ------ | ----- | ----- | -------- | ---------- | ---------- | ------------- |
-| HG002  | 29955 | 11693 | 2.56     | 29942      | 11673      | 2.57          |
-| HG003  | 29852 | 11769 | 2.54     | 29842      | 11746      | 2.54          |
-| HG004  | 30048 | 11838 | 2.54     | 30037      | 11821      | 2.54          |
+| Sample | [3]ts | [4]tv | [5]ts/tv | [6]ts (1st ALT) | [7]tv (1st ALT) | [8]ts/tv (1st ALT) |
+| ------ | ----- | ----- | -------- | --------------- | --------------- | ------------------ |
+| HG002  | 29955 | 11693 | 2.56     | 29942           | 11673           | 2.57               |
+| HG003  | 29852 | 11769 | 2.54     | 29842           | 1174            | 2.54               |
+| HG004  | 30048 | 11838 | 2.54     | 3003            | 11821           | 2.54               |
 
 If you want to restrict to the truth BED files, use this command:
 
@@ -287,12 +286,11 @@ done
 
 Which resulted in this table:
 
-| Sample | [3]ts | [4]tv | [5]ts/tv | [6]ts (1st | [7]tv (1st | [8]ts/tv (1st |
-:        :       :       :          : ALT)       : ALT)       : ALT)          :
-| ------ | ----- | ----- | -------- | ---------- | ---------- | ------------- |
-| HG002  | 27716 | 10549 | 2.63     | 27708      | 10536      | 2.63          |
-| HG003  | 27382 | 10527 | 2.60     | 27378      | 10515      | 2.60          |
-| HG004  | 27503 | 10607 | 2.59     | 27496      | 10596      | 2.59          |
+| Sample | [3]ts | [4]tv | [5]ts/tv | [6]ts (1st ALT) | [7]tv (1st ALT) | [8]ts/tv (1st ALT) |
+| ------ | ----- | ----- | -------- | --------------- | --------------- | ------------------ |
+| HG002  | 27716 | 10549 | 2.63     | 27708           | 10536           | 2.63               |
+| HG003  | 27382 | 10527 | 2.60     | 27378           | 10515           | 2.60               |
+| HG004  | 27503 | 10607 | 2.59     | 27496           | 10596           | 2.59               |
 
 ### Rtg vcfstats