Bash script that performs read alignment and variant calling/filtering/annotation
3/3
Exercise
Points Possible
Grade
Read alignment
1
1
Variant calling
1
1
Filtering and annotation
1
1
VCF file containing the first 100 lines of your filtered/annotated VCF from Step 2.4
1/1
Python script that runs exploratory analysis of VCF from Step 2.4
3.5/4
Exercise
Points Possible
Grade
Code to parse VCF file
2
1.5
Code to produce multi-panel plot
2
2
Nicely formatted and labeled multi-panel plot showing summaries of exploratory analysis
2/2
Total: 9.5/10
Great work! For full credit:
Step 3.4: To get the list of predicted effects, such as "missense_variant" and "upstream_gene_variant", look at the information after ANN. The format of ANN can be found in line 80 of your VCF.
Please submit your assignment for week 5.Bash script that performs read alignment and variant calling/filtering/annotation
3/3
VCF file containing the first 100 lines of your filtered/annotated VCF from Step 2.4
1/1
Python script that runs exploratory analysis of VCF from Step 2.4
3.5/4
Nicely formatted and labeled multi-panel plot showing summaries of exploratory analysis
2/2
Total: 9.5/10
Great work! For full credit: