Skip to content

Commit 4d0233f

Browse files
committed
Update README.md
1 parent 1861cf0 commit 4d0233f

File tree

1 file changed

+17
-0
lines changed

1 file changed

+17
-0
lines changed

examples/README.md

Lines changed: 17 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -104,4 +104,21 @@ For the two examples above, if `-D Uniprot` is set, several more output files wi
104104

105105
These files should be used for downstream analysis.
106106

107+
### variant in string format
107108

109+
```Python
110+
cd $PATH_OF_PRECISONPRODB
111+
112+
python ./src/PrecisionProDB.py \
113+
-m chr1-942451-T-C,1-6253878-C-T,1-2194700-C-G,1-1719406-G-A \
114+
-o ./test_output/Ensembl/str/sqlite_two_step/Ensembl.str.sqlite_two_step \
115+
-a Ensembl_GTF --PEFF -t 4 \
116+
-S ./test_output/Ensembl/Ensembl.sqlite
117+
```
118+
two output will be generated
119+
120+
* Ensembl.str.sqlite_two_step.pergeno.aa_mutations.csv
121+
* Ensembl.str.sqlite_two_step.pergeno.mutated_protein.fa
122+
123+
Note:
124+
if variant is a string, the `-S` option is required.

0 commit comments

Comments
 (0)