Running the autosomal_dominant tool
$ gemini autosomal_dominant
--columns "chrom, start, end,
ref, alt, gene, impact,
cadd_raw" \
trio.trim.vep.dominant.db \
| head \
| column -t
Note: copy and paste the full command from the Github Gist
chrom
start
end
ref
alt
gene
impact
cadd_raw
variant_id
family_id
family_members
family_genotypes
samples
family_count
chr15
59508889
59508890
T
C
AC092756.1
mature_miRNA
-‐0.78
8480
family1
1805,1847,4805
T/C,T/T,T/C
1805,4805
1
chr15
84868493
84868494
G
C
AC103965.1
downstream
-‐0.37
9360
family1
1805,1847,4805
G/C,G/G,G/C
1805,4805
1
chr15
75966884
75966885
G
A
AC105020.1
upstream
-‐0.74
8906
family1
1805,1847,4805
G/A,G/G,G/A
1805,4805
1
chr15
84945184
84945185
C
T
AC136704.1
upstream
0.01
9370
family1
1805,1847,4805
C/T,C/C,C/T
1805,4805
1
chr15
84945511
84945512
C
T
AC136704.1
upstream
0.74
9371
family1
1805,1847,4805
C/T,C/C,C/T
1805,4805
1
chr15
84949950
84949951
C
G
AC136704.1
mature_miRNA
-‐0.43
9378
family1
1805,1847,4805
C/G,C/C,C/G
1805,4805
1
chr15
89398552
89398553
C
A
ACAN
non_syn_coding
2.57
9519
family1
1805,1847,4805
C/A,C/C,C/A
1805,4805
1
chr15
100649247
100649248
G
A
ADAMTS17
synonymous_coding
1.51
9856
family1
1805,1847,4805
G/A,G/G,G/A
1805,4805
1
chr15
100692844
100692845
A
G
ADAMTS17
non_syn_coding
-‐1.16
9858
family1
1805,1847,4805
A/G,A/A,A/G
1805,4805
1
5