Fontconfig error: No writable cache directories Fontconfig error: No writable cache directories Fontconfig error: No writable cache directories Fontconfig error: No writable cache directories
QC Report for Methylation Calling
Input parameters
value | |
---|---|
Sample name | /data/Runs/412410/output/412410-20250516_2212/412410-EL_7-Z0208-CATGCTCAATATCTGAT/412410-EL_7-Z0208- CATGCTCAATATCTGAT.methyl_seq |
h5 file | /data/Runs/412410/output/412410-20250516_2212/412410-EL_7-Z0208-CATGCTCAATATCTGAT/412410-EL_7-Z0208- CATGCTCAATATCTGAT.methyl_seq.applicationQC.h5 |
Human Genome: Global Methylation Statistics
value | |
---|---|
metric | |
Percent Methylation: mean | 74.12 |
Percent Methylation: std | 28.69 |
Percent Methylation: median | 86.00 |
Total CpGs: | 736,875 |
Coverage: mean | 68.04 |
Coverage: std | 28.22 |
Coverage: median | 70.00 |
Human Genome: Details of Per-Read Descriptive Statistics
value | |
---|---|
metric | |
Percent Methylation: mean | 55.25 |
Percent Methylation: std | 46.87 |
Percent Methylation: median | 75.00 |
Total CpGs: mean | 1.91 |
Total CpGs: std | 2.47 |
Total CpGs: median | 1.00 |
Human Genome: Cytosines in Other Contexts Descriptive Statistics
value | |
---|---|
metric | |
Percent Methylation: Mean | 0.69% |
Percent Methylation: Std | 2.45% |
Percent Methylation: Median | 0.00% |
Coverage: Mean | 67.50 |
Coverage: Std | 26.97 |
Coverage: Median | 69.00 |
value | |
---|---|
metric | |
Percent Methylation: Mean | 0.67% |
Percent Methylation: Std | 2.88% |
Percent Methylation: Median | 0.00% |
Coverage: Mean | 33.90 |
Coverage: Std | 15.77 |
Coverage: Median | 34.00 |
Human Genome: M-bias plots of mean methylation along reads
M-bias Descriptive Statistics
value | |
---|---|
metric | |
Percent Methylation: Mean | 58.48% |
Percent Methylation: Std | 16.67% |
Percent Methylation: Median | 57.70% |
value | |
---|---|
metric | |
Percent Methylation: Mean | 60.77% |
Percent Methylation: Std | 15.66% |
Percent Methylation: Median | 63.19% |
Human Genome: M-bias plots of mean methylation on CHH/CHG along reads
M-bias of CHH/CHG Descriptive Statistics
value | |
---|---|
metric | |
Percent Methylation: Mean | 4.05% |
Percent Methylation: Std | 7.13% |
Percent Methylation: Median | 1.26% |
value | |
---|---|
metric | |
Percent Methylation: Mean | 0.84% |
Percent Methylation: Std | 4.98% |
Percent Methylation: Median | 0.51% |
Control Genomes: Methylation and Coverage Descriptive Statistics
value | |
---|---|
metric | |
Percent Methylation: Mean | 0.07% |
Percent Methylation: Std | 0.39% |
Percent Methylation: Median | 0.00% |
Total CpGs: | 3,113 |
Coverage: Mean | 200.00 |
Coverage: Std | 0.00 |
Coverage: Median | 200.00 |
value | |
---|---|
metric | |
Percent Methylation: Mean | 97.18% |
Percent Methylation: Std | 0.89% |
Percent Methylation: Median | 97.00% |
Total CpGs: | 173 |
Coverage: Mean | 200.00 |
Coverage: Std | 0.00 |
Coverage: Median | 200.00 |
Human Genome: Additional Details of CpG Methylation and Coverage
Human Genome: Values of CpG Methylation and Coverage
value | |
---|---|
bin | |
10 | 63,209 |
20 | 13,898 |
30 | 12,030 |
40 | 12,990 |
50 | 17,040 |
60 | 24,582 |
70 | 39,439 |
80 | 79,746 |
90 | 189,059 |
100 | 284,882 |
value | |
---|---|
bin | |
10 | 30,424 |
20 | 21,928 |
30 | 22,066 |
40 | 31,357 |
50 | 53,188 |
60 | 85,953 |
70 | 116,393 |
80 | 124,199 |
90 | 104,914 |
100 | 70,963 |
110 | 39,993 |
120 | 19,238 |
130 | 8,183 |
140 | 3,032 |
150 | 1,221 |
160 | 580 |
170 | 335 |
180 | 253 |
190 | 183 |
200 | 2,472 |
value | |
---|---|
bin | |
10 | 4.13% |
20 | 7.10% |
30 | 10.10% |
40 | 14.35% |
50 | 21.57% |
60 | 33.24% |
70 | 49.03% |
80 | 65.89% |
90 | 80.13% |
100 | 89.76% |
110 | 95.18% |
120 | 97.79% |
130 | 98.90% |
140 | 99.32% |
150 | 99.48% |
160 | 99.56% |
170 | 99.61% |
180 | 99.64% |
190 | 99.66% |
200 | 100.00% |