Configuration Settings for the Workflow
species | tissue | metadata | genesets | genetype | min_umi_per_cell | max_mt_percent | min_genes_per_cell | min_cell | scr_th | seu_nrmlz_method | seu_scale_factor | seu_n_hvg | seu_n_dim | seu_k_param | seu_cluster_res | harmony | tsne | spr_n_dim | mrk_logfc | mrk_min_pct | mrk_only_pos | mrk_test | mrk_top_n | adt | trajectory | traj_var_gene | traj_top_n | pipe_version |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
hs | skin | sample_based | none | none | 500 | 15 | 250 | 3 | 0.25 | LogNormalize | 1e+06 | 2000 | 30 | 20 | 0.7 | sample | FALSE | 30 | 0.25 | 0.5 | TRUE | wilcox | 0 | FALSE | none | 1000 | 50 | 1.0.0 |
sample | disease | treatment | tissue | sample_id |
---|---|---|---|---|
Control01 | Control | pre_tx | Skin | S1 |
Control02 | Control | pre_tx | Skin | S2 |
Control03 | Control | pre_tx | Skin | S3 |
Control04 | Control | pre_tx | Skin | S4 |
Control05 | Control | pre_tx | Skin | S5 |
Control06 | Control | pre_tx | Skin | S6 |
Control07 | Control | pre_tx | Skin | S7 |
Control08 | Control | pre_tx | Skin | S8 |
Control09 | Control | pre_tx | Skin | S9 |
Control10 | Control | pre_tx | Skin | S10 |
HIS_DIS_01M_LS_Der | HS | pre_tx | Dermis | S11 |
HIS_DIS_01M_LS_Epi | HS | pre_tx | Epidermis | S12 |
HIS_DIS_02M_LS_Der | HS | pre_tx | Dermis | S13 |
HIS_DIS_02M_LS_Epi | HS | pre_tx | Epidermis | S14 |
HIS_DIS_A_LS_Total | HS | pre_tx | Skin | S15 |
HIS_DIS_B_LS_Total | HS | pre_tx | Skin | S16 |
HIS_DIS_D_LS_Der | HS | pre_tx | Dermis | S17 |
HIS_DIS_D_LS_Epi | HS | pre_tx | Epidermis | S18 |
Psoriasis01_preTx_LS | PSO | pre_tx | Skin | S19 |
Psoriasis02_preTx_LS | PSO | pre_tx | Skin | S20 |
Psoriasis03_preTx_LS | PSO | pre_tx | Skin | S21 |
Psoriasis04_postTx_week12_LS | PSO | post_tx | Skin | S22 |
Psoriasis04_preTx_LS | PSO | pre_tx | Skin | S23 |
Psoriasis05_postTx_week12_LS | PSO | post_tx | Skin | S24 |
Psoriasis05_preTx_LS | PSO | pre_tx | Skin | S25 |
Psoriasis06_preTx_LS | PSO | pre_tx | Skin | S26 |
Psoriasis07_postTx_week12_LS | PSO | post_tx | Skin | S27 |
Psoriasis07_postTx_week48_LS | PSO | post_tx | Skin | S28 |
Psoriasis07_preTx_LS | PSO | pre_tx | Skin | S29 |
Psoriasis07_preTx_LS_02 | PSO | pre_tx | Skin | S30 |
Psoriasis07_preTx_NL_02 | PSO | pre_tx | Skin | S31 |
Psoriasis08_postTx_week12_LS | PSO | post_tx | Skin | S32 |
Psoriasis08_postTx_week24_LS | PSO | post_tx | Skin | S33 |
Psoriasis08_preTx_LS | PSO | pre_tx | Skin | S34 |
Psoriasis09_preTx_LS | PSO | pre_tx | Skin | S35 |
Psoriasis10_preTx_LS | PSO | pre_tx | Skin | S36 |
sample_id | pre_qc_gene | pre_qc_cell | post_qc_gene | post_qc_cell |
---|---|---|---|---|
S1 | 21,046 | 2,582 | 17,315 | 2,454 |
S2 | 19,744 | 1,033 | 15,451 | 739 |
S3 | 15,547 | 355 | 10,924 | 303 |
S4 | 21,850 | 1,531 | 17,718 | 1,383 |
S5 | 13,251 | 281 | 8,570 | 72 |
S6 | 21,133 | 1,171 | 16,223 | 549 |
S7 | 19,574 | 839 | 15,628 | 586 |
S8 | 21,223 | 3,871 | 17,080 | 2,628 |
S9 | 21,009 | 2,615 | 17,269 | 2,289 |
S10 | 20,577 | 2,490 | 16,298 | 1,406 |
S11 | 23,312 | 3,301 | 19,486 | 2,660 |
S12 | 22,912 | 3,564 | 18,718 | 1,939 |
S13 | 20,118 | 906 | 15,771 | 653 |
S14 | 20,728 | 1,423 | 16,241 | 660 |
S15 | 21,731 | 1,855 | 17,776 | 1,578 |
S16 | 22,167 | 2,308 | 18,079 | 1,967 |
S17 | 20,513 | 1,867 | 16,391 | 1,524 |
S18 | 20,106 | 1,229 | 15,956 | 1,013 |
S19 | 19,032 | 945 | 15,298 | 735 |
S20 | 19,041 | 969 | 15,503 | 902 |
S21 | 19,899 | 1,432 | 16,488 | 1,256 |
S22 | 20,355 | 1,761 | 16,842 | 1,626 |
S23 | 20,857 | 2,187 | 17,213 | 1,991 |
S24 | 17,948 | 705 | 14,312 | 672 |
S25 | 21,962 | 2,894 | 18,350 | 2,749 |
S26 | 21,283 | 1,989 | 17,631 | 1,773 |
S27 | 22,710 | 2,575 | 18,492 | 1,533 |
S28 | 20,863 | 1,159 | 16,573 | 884 |
S29 | 21,976 | 1,738 | 17,973 | 1,282 |
S30 | 22,644 | 2,469 | 18,464 | 1,808 |
S31 | 21,774 | 2,026 | 17,359 | 906 |
S32 | 20,914 | 1,515 | 16,258 | 729 |
S33 | 23,576 | 4,333 | 19,449 | 2,571 |
S34 | 24,304 | 4,340 | 20,482 | 2,733 |
S35 | 22,437 | 2,168 | 18,375 | 1,117 |
S36 | 22,486 | 1,855 | 18,368 | 1,410 |
Vales are post-QC.
sample_id | min | 0% | 25% | 50% | 75% | 100% | max |
---|---|---|---|---|---|---|---|
S1 | 502 | 502 | 2,120 | 6,262 | 15,019 | 85,792 | 85,792 |
S2 | 500 | 500 | 975 | 1,856 | 4,142 | 64,248 | 64,248 |
S3 | 502 | 502 | 1,072 | 2,639 | 6,558 | 80,478 | 80,478 |
S4 | 503 | 503 | 1,060 | 2,589 | 5,510 | 65,620 | 65,620 |
S5 | 500 | 500 | 967 | 2,954 | 4,753 | 42,003 | 42,003 |
S6 | 518 | 518 | 1,935 | 4,576 | 15,689 | 173,961 | 173,961 |
S7 | 503 | 503 | 1,848 | 6,046 | 19,214 | 130,639 | 130,639 |
S8 | 500 | 500 | 1,025 | 2,358 | 9,111 | 128,956 | 128,956 |
S9 | 501 | 501 | 1,355 | 3,137 | 7,638 | 248,954 | 248,954 |
S10 | 500 | 500 | 1,403 | 4,256 | 13,214 | 89,594 | 89,594 |
S11 | 500 | 500 | 3,504 | 4,818 | 8,560 | 125,738 | 125,738 |
S12 | 505 | 505 | 2,974 | 5,509 | 14,722 | 135,798 | 135,798 |
S13 | 503 | 503 | 3,372 | 5,215 | 7,631 | 182,243 | 182,243 |
S14 | 502 | 502 | 2,038 | 4,830 | 11,952 | 209,579 | 209,579 |
S15 | 520 | 520 | 3,493 | 4,634 | 6,543 | 98,359 | 98,359 |
S16 | 500 | 500 | 3,674 | 4,777 | 6,572 | 136,848 | 136,848 |
S17 | 506 | 506 | 2,910 | 3,795 | 4,991 | 116,660 | 116,660 |
S18 | 505 | 505 | 3,464 | 4,617 | 6,292 | 110,581 | 110,581 |
S19 | 505 | 505 | 2,411 | 3,454 | 4,729 | 76,643 | 76,643 |
S20 | 502 | 502 | 1,786 | 4,204 | 9,365 | 55,775 | 55,775 |
S21 | 528 | 528 | 2,485 | 4,126 | 11,370 | 118,279 | 118,279 |
S22 | 503 | 503 | 1,539 | 3,480 | 9,551 | 59,279 | 59,279 |
S23 | 505 | 505 | 2,060 | 3,049 | 7,622 | 42,729 | 42,729 |
S24 | 500 | 500 | 963 | 1,459 | 3,759 | 25,284 | 25,284 |
S25 | 500 | 500 | 2,001 | 2,992 | 9,034 | 94,985 | 94,985 |
S26 | 511 | 511 | 2,426 | 3,341 | 10,990 | 42,965 | 42,965 |
S27 | 508 | 508 | 2,682 | 4,875 | 15,684 | 98,238 | 98,238 |
S28 | 506 | 506 | 3,192 | 4,598 | 10,552 | 84,953 | 84,953 |
S29 | 510 | 510 | 2,917 | 4,176 | 13,739 | 112,848 | 112,848 |
S30 | 552 | 552 | 3,040 | 5,243 | 18,197 | 117,307 | 117,307 |
S31 | 512 | 512 | 3,909 | 9,194 | 22,492 | 83,035 | 83,035 |
S32 | 523 | 523 | 3,308 | 7,507 | 16,600 | 99,133 | 99,133 |
S33 | 501 | 501 | 2,714 | 6,173 | 15,362 | 198,545 | 198,545 |
S34 | 506 | 506 | 3,582 | 5,318 | 16,124 | 238,213 | 238,213 |
S35 | 517 | 517 | 3,300 | 7,073 | 21,424 | 134,496 | 134,496 |
S36 | 513 | 513 | 2,782 | 5,067 | 11,473 | 212,095 | 212,095 |
Vales are post-QC.
sample_id | min | 0% | 25% | 50% | 75% | 100% | max |
---|---|---|---|---|---|---|---|
S1 | 253 | 253 | 764 | 1,486 | 2,418 | 7,088 | 7,088 |
S2 | 251 | 251 | 471 | 745 | 1,362 | 8,316 | 8,316 |
S3 | 255 | 255 | 432 | 871 | 1,554 | 6,540 | 6,540 |
S4 | 250 | 250 | 495 | 895 | 1,588 | 7,399 | 7,399 |
S5 | 268 | 268 | 475 | 1,190 | 1,767 | 3,996 | 3,996 |
S6 | 251 | 251 | 767 | 1,537 | 2,860 | 9,266 | 9,266 |
S7 | 261 | 261 | 722 | 1,755 | 3,212 | 8,450 | 8,450 |
S8 | 253 | 253 | 517 | 872 | 1,948 | 6,794 | 6,794 |
S9 | 250 | 250 | 646 | 1,195 | 1,876 | 9,534 | 9,534 |
S10 | 255 | 255 | 613 | 1,226 | 2,396 | 7,433 | 7,433 |
S11 | 253 | 253 | 1,349 | 1,683 | 2,453 | 9,811 | 9,811 |
S12 | 253 | 253 | 1,005 | 1,697 | 2,578 | 9,484 | 9,484 |
S13 | 267 | 267 | 1,216 | 1,625 | 2,133 | 9,321 | 9,321 |
S14 | 251 | 251 | 735 | 1,409 | 2,423 | 9,998 | 9,998 |
S15 | 250 | 250 | 1,352 | 1,631 | 2,069 | 8,908 | 8,908 |
S16 | 251 | 251 | 1,414 | 1,696 | 2,114 | 9,597 | 9,597 |
S17 | 269 | 269 | 1,135 | 1,366 | 1,696 | 8,687 | 8,687 |
S18 | 274 | 274 | 1,229 | 1,487 | 1,850 | 8,398 | 8,398 |
S19 | 263 | 263 | 1,049 | 1,363 | 1,671 | 8,625 | 8,625 |
S20 | 250 | 250 | 650 | 1,202 | 1,978 | 7,130 | 7,130 |
S21 | 252 | 252 | 795 | 1,240 | 1,914 | 9,417 | 9,417 |
S22 | 251 | 251 | 684 | 1,188 | 2,118 | 7,458 | 7,458 |
S23 | 254 | 254 | 833 | 1,045 | 1,662 | 5,039 | 5,039 |
S24 | 251 | 251 | 527 | 730 | 1,476 | 5,346 | 5,346 |
S25 | 251 | 251 | 805 | 1,081 | 1,769 | 9,126 | 9,126 |
S26 | 252 | 252 | 996 | 1,241 | 2,150 | 6,510 | 6,510 |
S27 | 252 | 252 | 786 | 1,591 | 2,603 | 8,325 | 8,325 |
S28 | 251 | 251 | 1,261 | 1,574 | 2,430 | 8,805 | 8,805 |
S29 | 251 | 251 | 1,204 | 1,518 | 2,726 | 9,877 | 9,877 |
S30 | 250 | 250 | 1,069 | 1,666 | 2,855 | 8,856 | 8,856 |
S31 | 253 | 253 | 1,312 | 2,050 | 3,263 | 6,680 | 6,680 |
S32 | 260 | 260 | 1,064 | 1,750 | 2,704 | 7,821 | 7,821 |
S33 | 256 | 256 | 870 | 1,705 | 2,771 | 8,893 | 8,893 |
S34 | 250 | 250 | 1,121 | 1,724 | 2,828 | 11,797 | 11,797 |
S35 | 250 | 250 | 706 | 1,649 | 2,666 | 10,391 | 10,391 |
S36 | 255 | 255 | 916 | 1,631 | 2,332 | 10,529 | 10,529 |
Vales are post-QC.
sample_id | min | 0% | 25% | 50% | 75% | 100% | max |
---|---|---|---|---|---|---|---|
S1 | 0.00 | 0.00 | 0.21 | 0.57 | 2.12 | 14.95 | 14.95 |
S2 | 0.00 | 0.00 | 2.16 | 4.19 | 8.95 | 14.98 | 14.98 |
S3 | 0.00 | 0.00 | 0.85 | 1.72 | 2.92 | 14.92 | 14.92 |
S4 | 0.00 | 0.00 | 2.93 | 4.49 | 7.30 | 15.00 | 15.00 |
S5 | 0.00 | 0.00 | 1.72 | 3.21 | 4.35 | 14.56 | 14.56 |
S6 | 0.00 | 0.00 | 1.35 | 2.76 | 5.62 | 14.95 | 14.95 |
S7 | 0.00 | 0.00 | 1.21 | 2.45 | 4.41 | 14.82 | 14.82 |
S8 | 0.00 | 0.00 | 1.82 | 3.54 | 6.39 | 14.99 | 14.99 |
S9 | 0.00 | 0.00 | 1.11 | 2.20 | 3.77 | 14.81 | 14.81 |
S10 | 0.00 | 0.00 | 1.45 | 3.19 | 6.02 | 15.00 | 15.00 |
S11 | 0.00 | 0.00 | 3.27 | 5.56 | 7.76 | 14.96 | 14.96 |
S12 | 0.00 | 0.00 | 1.98 | 4.71 | 7.69 | 14.97 | 14.97 |
S13 | 0.00 | 0.00 | 3.09 | 4.82 | 6.72 | 15.00 | 15.00 |
S14 | 0.00 | 0.00 | 1.84 | 3.94 | 6.47 | 14.86 | 14.86 |
S15 | 0.00 | 0.00 | 3.16 | 4.19 | 5.40 | 14.93 | 14.93 |
S16 | 0.00 | 0.00 | 2.70 | 3.62 | 4.70 | 14.38 | 14.38 |
S17 | 0.00 | 0.00 | 2.96 | 3.91 | 5.13 | 14.86 | 14.86 |
S18 | 0.00 | 0.00 | 2.44 | 3.32 | 4.55 | 13.61 | 13.61 |
S19 | 0.72 | 0.72 | 4.30 | 5.25 | 6.87 | 14.64 | 14.64 |
S20 | 0.08 | 0.08 | 0.43 | 1.01 | 2.66 | 13.67 | 13.67 |
S21 | 0.00 | 0.00 | 0.91 | 2.31 | 3.68 | 14.75 | 14.75 |
S22 | 0.00 | 0.00 | 1.27 | 3.00 | 5.20 | 14.82 | 14.82 |
S23 | 0.00 | 0.00 | 2.15 | 3.28 | 4.41 | 14.96 | 14.96 |
S24 | 0.00 | 0.00 | 1.67 | 2.48 | 3.33 | 12.74 | 12.74 |
S25 | 0.00 | 0.00 | 0.18 | 0.86 | 2.63 | 14.96 | 14.96 |
S26 | 0.00 | 0.00 | 1.58 | 2.59 | 4.08 | 14.93 | 14.93 |
S27 | 0.00 | 0.00 | 1.21 | 3.11 | 5.06 | 14.90 | 14.90 |
S28 | 0.00 | 0.00 | 3.43 | 4.90 | 6.46 | 14.76 | 14.76 |
S29 | 0.09 | 0.09 | 3.51 | 5.09 | 6.84 | 14.97 | 14.97 |
S30 | 0.00 | 0.00 | 1.43 | 2.73 | 4.12 | 14.75 | 14.75 |
S31 | 0.00 | 0.00 | 1.36 | 3.12 | 5.39 | 14.96 | 14.96 |
S32 | 0.00 | 0.00 | 2.40 | 4.30 | 6.82 | 14.43 | 14.43 |
S33 | 0.00 | 0.00 | 1.25 | 3.01 | 5.71 | 14.99 | 14.99 |
S34 | 0.00 | 0.00 | 4.04 | 6.11 | 8.33 | 14.97 | 14.97 |
S35 | 0.08 | 0.08 | 1.67 | 5.54 | 8.65 | 14.95 | 14.95 |
S36 | 0.00 | 0.00 | 1.33 | 4.31 | 6.72 | 14.95 | 14.95 |
Thresholds, represented by dashed lines, were implemented to filter the data and only retain cells of high quality.
Number of barcodes shared between pairs of samples post-QC.
S1 | S2 | S3 | S4 | S6 | S7 | S8 | S9 | S10 | S11 | S12 | S13 | S14 | S15 | S16 | S17 | S18 | S19 | S20 | S21 | S22 | S23 | S24 | S25 | S26 | S27 | S28 | S29 | S30 | S31 | S32 | S33 | S34 | S35 | S36 | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
S1 | 2454 | 1 | 1 | 4 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 4 | 4 | 8 | 4 | 1 | 5 | 2 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 |
S2 | 1 | 739 | 0 | 6 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 3 | 0 | 0 | 0 | 5 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S3 | 1 | 0 | 303 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 3 | 1 | 0 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S4 | 4 | 6 | 0 | 1383 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 2 | 1 | 1 | 4 | 2 | 6 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S6 | 0 | 0 | 0 | 0 | 549 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 |
S7 | 0 | 0 | 0 | 0 | 0 | 586 | 276 | 159 | 265 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 12 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
S8 | 0 | 0 | 0 | 0 | 0 | 276 | 2628 | 216 | 424 | 3 | 0 | 1 | 0 | 1 | 4 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 20 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 1 |
S9 | 1 | 0 | 1 | 0 | 0 | 159 | 216 | 2289 | 199 | 2 | 0 | 2 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 17 | 0 | 2 | 0 | 0 | 4 | 1 | 0 | 2 |
S10 | 0 | 0 | 0 | 1 | 0 | 265 | 424 | 199 | 1406 | 0 | 2 | 0 | 0 | 0 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 24 | 0 | 1 | 0 | 0 | 3 | 0 | 0 | 0 |
S11 | 0 | 0 | 0 | 1 | 0 | 0 | 3 | 2 | 0 | 2660 | 21 | 0 | 0 | 0 | 3 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 2 | 0 | 1 | 3 | 0 | 0 |
S12 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 21 | 1939 | 0 | 2 | 2 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 1 | 2 | 2 | 1 | 0 | 2 | 0 | 0 |
S13 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 2 | 0 | 0 | 0 | 653 | 63 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 1 |
S14 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 2 | 63 | 660 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 2 | 2 | 0 | 0 | 1 |
S15 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 1 | 0 | 0 | 2 | 0 | 0 | 1578 | 2 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 2 | 0 | 0 |
S16 | 0 | 0 | 0 | 0 | 0 | 1 | 4 | 0 | 2 | 3 | 0 | 0 | 0 | 2 | 1967 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 2 | 1 | 0 | 3 | 0 | 0 | 0 | 4 | 1 | 0 |
S17 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 1 | 1 | 1 | 0 | 2 | 0 | 1524 | 26 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S18 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 26 | 1013 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 1 |
S19 | 3 | 1 | 1 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 735 | 3 | 3 | 2 | 2 | 1 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S20 | 4 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 902 | 0 | 0 | 2 | 0 | 3 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S21 | 4 | 3 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 0 | 1256 | 2 | 2 | 3 | 8 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S22 | 8 | 0 | 3 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 2 | 1626 | 5 | 1 | 3 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |
S23 | 4 | 0 | 1 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 2 | 2 | 5 | 1991 | 3 | 4 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 |
S24 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 3 | 1 | 3 | 672 | 1 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
S25 | 5 | 5 | 2 | 6 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 1 | 0 | 0 | 3 | 8 | 3 | 4 | 1 | 2749 | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S26 | 2 | 1 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 2 | 1 | 4 | 4 | 1 | 3 | 5 | 1773 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
S27 | 1 | 0 | 0 | 0 | 1 | 0 | 2 | 3 | 0 | 0 | 2 | 0 | 0 | 1 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1533 | 1 | 0 | 1 | 0 | 0 | 2 | 1 | 0 | 0 |
S28 | 0 | 0 | 0 | 0 | 0 | 12 | 20 | 17 | 24 | 0 | 0 | 0 | 1 | 0 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 884 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 |
S29 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1282 | 1 | 0 | 1 | 1 | 0 | 0 | 1 |
S30 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 2 | 1 | 1 | 2 | 1 | 0 | 0 | 3 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 1808 | 0 | 0 | 0 | 2 | 2 | 0 |
S31 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 906 | 0 | 1 | 1 | 0 | 0 |
S32 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 729 | 0 | 1 | 0 | 0 |
S33 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 4 | 3 | 1 | 0 | 0 | 2 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 2 | 1 | 1 | 0 | 1 | 0 | 2571 | 3 | 0 | 0 |
S34 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 3 | 2 | 0 | 0 | 2 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 1 | 0 | 0 | 2 | 1 | 1 | 3 | 2733 | 1 | 3 |
S35 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 1 | 1117 | 0 |
S36 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 2 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 3 | 0 | 1410 |
Fraction (%) of barcodes shared between pairs of samples post-QC.
S1 | S2 | S3 | S4 | S6 | S7 | S8 | S9 | S10 | S11 | S12 | S13 | S14 | S15 | S16 | S17 | S18 | S19 | S20 | S21 | S22 | S23 | S24 | S25 | S26 | S27 | S28 | S29 | S30 | S31 | S32 | S33 | S34 | S35 | S36 | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
S1 | 100.00 | 0.06 | 0.07 | 0.21 | 0.00 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.19 | 0.24 | 0.22 | 0.39 | 0.18 | 0.06 | 0.19 | 0.09 | 0.05 | 0.00 | 0e+00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 |
S2 | 0.06 | 100.00 | 0.00 | 0.57 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.14 | 0.00 | 0.30 | 0.00 | 0.00 | 0.00 | 0.29 | 0.08 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S3 | 0.07 | 0.00 | 100.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.19 | 0.00 | 0.00 | 0.31 | 0.09 | 0.00 | 0.13 | 0.10 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S4 | 0.21 | 0.57 | 0.00 | 100.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 | 0.05 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.19 | 0.18 | 0.08 | 0.07 | 0.24 | 0.19 | 0.29 | 0.06 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S6 | 0.00 | 0.00 | 0.00 | 0.00 | 100.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.09 | 0.00 | 0.00 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.10 | 0.00 | 0e+00 | 0.08 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S7 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 100.00 | 17.17 | 11.06 | 26.61 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.63 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 |
S8 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 17.17 | 100.00 | 8.79 | 21.02 | 0.11 | 0.00 | 0.06 | 0.00 | 0.05 | 0.17 | 0.05 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.10 | 1.14 | 0e+00 | 0.00 | 0.00 | 0.06 | 0.04 | 0.04 | 0.00 | 0.05 |
S9 | 0.04 | 0.00 | 0.08 | 0.00 | 0.00 | 11.06 | 8.79 | 100.00 | 10.77 | 0.08 | 0.00 | 0.14 | 0.14 | 0.05 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.16 | 1.07 | 0e+00 | 0.10 | 0.00 | 0.00 | 0.16 | 0.04 | 0.00 | 0.11 |
S10 | 0.00 | 0.00 | 0.00 | 0.07 | 0.00 | 26.61 | 21.02 | 10.77 | 100.00 | 0.00 | 0.12 | 0.00 | 0.00 | 0.00 | 0.12 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 2.10 | 0e+00 | 0.06 | 0.00 | 0.00 | 0.15 | 0.00 | 0.00 | 0.00 |
S11 | 0.00 | 0.00 | 0.00 | 0.05 | 0.00 | 0.00 | 0.11 | 0.08 | 0.00 | 100.00 | 0.91 | 0.00 | 0.00 | 0.00 | 0.13 | 0.05 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 5e-02 | 0.04 | 0.11 | 0.00 | 0.04 | 0.11 | 0.00 | 0.00 |
S12 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.12 | 0.91 | 100.00 | 0.00 | 0.15 | 0.11 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.12 | 0.00 | 6e-02 | 0.11 | 0.14 | 0.07 | 0.00 | 0.09 | 0.00 | 0.00 |
S13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.14 | 0.00 | 0.00 | 0.00 | 100.00 | 9.60 | 0.00 | 0.00 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1e-01 | 0.08 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.10 |
S14 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.14 | 0.00 | 0.00 | 0.15 | 9.60 | 100.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.13 | 0e+00 | 0.00 | 0.00 | 0.29 | 0.12 | 0.00 | 0.00 | 0.10 |
S15 | 0.00 | 0.00 | 0.00 | 0.00 | 0.09 | 0.00 | 0.05 | 0.05 | 0.00 | 0.00 | 0.11 | 0.00 | 0.00 | 100.00 | 0.11 | 0.13 | 0.08 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.09 | 0.05 | 0.09 | 0.00 | 0.00 |
S16 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.17 | 0.00 | 0.12 | 0.13 | 0.00 | 0.00 | 0.00 | 0.11 | 100.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.00 | 0.11 | 0.07 | 0e+00 | 0.16 | 0.00 | 0.00 | 0.00 | 0.17 | 0.06 | 0.00 |
S17 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.00 | 0.07 | 0.05 | 0.06 | 0.09 | 0.00 | 0.13 | 0.00 | 100.00 | 2.05 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.06 | 0.07 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S18 | 0.00 | 0.00 | 0.00 | 0.00 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.00 | 2.05 | 100.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.11 | 0e+00 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 |
S19 | 0.19 | 0.14 | 0.19 | 0.19 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 100.00 | 0.37 | 0.30 | 0.17 | 0.15 | 0.14 | 0.00 | 0.16 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S20 | 0.24 | 0.00 | 0.00 | 0.18 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.37 | 100.00 | 0.00 | 0.00 | 0.14 | 0.00 | 0.16 | 0.07 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S21 | 0.22 | 0.30 | 0.00 | 0.08 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.30 | 0.00 | 100.00 | 0.14 | 0.12 | 0.31 | 0.40 | 0.26 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S22 | 0.39 | 0.00 | 0.31 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.17 | 0.00 | 0.14 | 100.00 | 0.28 | 0.09 | 0.14 | 0.24 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 |
S23 | 0.18 | 0.00 | 0.09 | 0.24 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.15 | 0.14 | 0.12 | 0.28 | 100.00 | 0.23 | 0.17 | 0.05 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.04 | 0.04 | 0.00 | 0.00 |
S24 | 0.06 | 0.00 | 0.00 | 0.19 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.14 | 0.00 | 0.31 | 0.09 | 0.23 | 100.00 | 0.06 | 0.25 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 |
S25 | 0.19 | 0.29 | 0.13 | 0.29 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.05 | 0.00 | 0.00 | 0.16 | 0.40 | 0.14 | 0.17 | 0.06 | 100.00 | 0.22 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S26 | 0.09 | 0.08 | 0.10 | 0.06 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.16 | 0.07 | 0.26 | 0.24 | 0.05 | 0.25 | 0.22 | 100.00 | 0.00 | 0.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
S27 | 0.05 | 0.00 | 0.00 | 0.00 | 0.10 | 0.00 | 0.10 | 0.16 | 0.00 | 0.00 | 0.12 | 0.00 | 0.00 | 0.06 | 0.11 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 100.00 | 0.08 | 0e+00 | 0.06 | 0.00 | 0.00 | 0.10 | 0.05 | 0.00 | 0.00 |
S28 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.63 | 1.14 | 1.07 | 2.10 | 0.00 | 0.00 | 0.00 | 0.13 | 0.00 | 0.07 | 0.00 | 0.11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 100.00 | 0e+00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 |
S29 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.06 | 0.10 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1e+02 | 0.06 | 0.00 | 0.10 | 0.05 | 0.00 | 0.00 | 0.07 |
S30 | 0.05 | 0.00 | 0.00 | 0.00 | 0.08 | 0.00 | 0.00 | 0.10 | 0.06 | 0.04 | 0.11 | 0.08 | 0.00 | 0.00 | 0.16 | 0.00 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 6e-02 | 100.00 | 0.00 | 0.00 | 0.00 | 0.09 | 0.14 | 0.00 |
S31 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.11 | 0.14 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0e+00 | 0.00 | 100.00 | 0.00 | 0.06 | 0.05 | 0.00 | 0.00 |
S32 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 | 0.07 | 0.00 | 0.29 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1e-01 | 0.00 | 0.00 | 100.00 | 0.00 | 0.06 | 0.00 | 0.00 |
S33 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 0.16 | 0.15 | 0.04 | 0.00 | 0.00 | 0.12 | 0.05 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 | 0.00 | 0.10 | 0.06 | 5e-02 | 0.00 | 0.06 | 0.00 | 100.00 | 0.11 | 0.00 | 0.00 |
S34 | 0.04 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.04 | 0.04 | 0.00 | 0.11 | 0.09 | 0.00 | 0.00 | 0.09 | 0.17 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.04 | 0.06 | 0.00 | 0.00 | 0.05 | 0.00 | 0e+00 | 0.09 | 0.05 | 0.06 | 0.11 | 100.00 | 0.05 | 0.14 |
S35 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0e+00 | 0.14 | 0.00 | 0.00 | 0.00 | 0.05 | 100.00 | 0.00 |
S36 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.11 | 0.00 | 0.00 | 0.00 | 0.10 | 0.10 | 0.00 | 0.00 | 0.00 | 0.08 | 0.00 | 0.00 | 0.00 | 0.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 7e-02 | 0.00 | 0.00 | 0.00 | 0.00 | 0.14 | 0.00 | 100.00 |
Observed scores are used for doublet classification. Dashed line indicates the threshold used to identify doublets.
diamonds and diamonds refer to before and after QC, respectively.
The error bars represent the standard deviation of the number of UMIs and genes across cells per sample.
min | 0% | 25% | 50% | 75% | 100% | max | |
---|---|---|---|---|---|---|---|
UMI per cell | 500 | 500 | 2,350 | 4,341 | 10,520 | 248,954 | 248,954 |
Gene per cell | 250 | 250 | 863 | 1,438 | 2,232 | 11,797 | 11,797 |
Mitochondrial (%) per cell | 0.00 | 0.00 | 1.54 | 3.37 | 5.64 | 15.00 | 15.00 |
Note: Labels may have been removed if they overlap excessively.
Note: QC metrics based on kernel density estimation.
Note: Labels may have been removed if they overlap excessively.
Values at the top of each bar indicate the percentage of cells
This measurement is a proxy to batch effect artifacts. Values adjacent to each point indicate the number of cells.
Note: Labels may have been removed if they overlap excessively.
Values at the top of each bar indicate the percentage of cells
Publication: no referrence
Data Availability: no referrence
This is the output of sessionInfo()
on the computing
system on which this document was compiled
## R version 4.3.2 (2023-10-31)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: Ubuntu 20.04.6 LTS
##
## Matrix products: default
## BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
##
## Random number generation:
## RNG: L'Ecuyer-CMRG
## Normal: Inversion
## Sample: Rejection
##
## locale:
## [1] C
##
## time zone: Etc/UTC
## tzcode source: system (glibc)
##
## attached base packages:
## [1] stats4 grid stats graphics grDevices
## [6] utils datasets methods base
##
## other attached packages:
## [1] edgeR_4.0.2 limma_3.58.1
## [3] slingshot_2.10.0 TrajectoryUtils_1.10.0
## [5] SingleCellExperiment_1.24.0 SummarizedExperiment_1.32.0
## [7] Biobase_2.62.0 GenomicRanges_1.54.1
## [9] GenomeInfoDb_1.38.1 IRanges_2.36.0
## [11] S4Vectors_0.40.2 BiocGenerics_0.48.1
## [13] MatrixGenerics_1.14.0 matrixStats_1.1.0
## [15] princurve_2.1.6 Nebulosa_1.12.0
## [17] patchwork_1.1.3 data.table_1.14.10
## [19] ComplexHeatmap_2.18.0 visNetwork_2.1.2
## [21] plotly_4.10.3 data.tree_1.1.0
## [23] DT_0.30 readxl_1.4.3
## [25] gtools_3.9.5 gplots_3.1.3
## [27] gridtext_0.1.5 igraph_1.5.1
## [29] sargent_1.0.1 SignacX_2.2.5
## [31] harmony_1.2.0 Rcpp_1.0.11
## [33] kableExtra_1.3.4 purrr_1.0.2
## [35] reticulate_1.34.0 RColorBrewer_1.1-3
## [37] cowplot_1.1.1 gridExtra_2.3
## [39] pheatmap_1.0.12 ggrepel_0.9.4
## [41] ggplot2_3.4.4 Seurat_5.0.1
## [43] SeuratObject_5.0.1 sp_2.1-2
## [45] dplyr_1.1.4 optparse_1.7.3
##
## loaded via a namespace (and not attached):
## [1] spatstat.sparse_3.0-3 bitops_1.0-7
## [3] httr_1.4.7 webshot_0.5.5
## [5] doParallel_1.0.17 tools_4.3.2
## [7] sctransform_0.4.1 utf8_1.2.4
## [9] R6_2.5.1 mgcv_1.9-0
## [11] lazyeval_0.2.2 uwot_0.1.16
## [13] ggdist_3.3.1 GetoptLong_1.0.5
## [15] withr_2.5.2 progressr_0.14.0
## [17] cli_3.6.1 spatstat.explore_3.2-5
## [19] fastDummies_1.7.3 labeling_0.4.3
## [21] sass_0.4.8 mvtnorm_1.2-4
## [23] spatstat.data_3.0-3 proxy_0.4-27
## [25] ggridges_0.5.4 pbapply_1.7-2
## [27] commonmark_1.9.0 systemfonts_1.0.5
## [29] R.utils_2.12.3 svglite_2.1.2
## [31] parallelly_1.36.0 rstudioapi_0.15.0
## [33] generics_0.1.3 shape_1.4.6
## [35] crosstalk_1.2.1 ica_1.0-3
## [37] spatstat.random_3.2-2 distributional_0.3.2
## [39] Matrix_1.6-4 fansi_1.0.6
## [41] DescTools_0.99.52 abind_1.4-5
## [43] R.methodsS3_1.8.2 lifecycle_1.0.4
## [45] yaml_2.3.7 SparseArray_1.2.2
## [47] Rtsne_0.17 promises_1.2.1
## [49] crayon_1.5.2 miniUI_0.1.1.1
## [51] lattice_0.22-5 pillar_1.9.0
## [53] knitr_1.45 rjson_0.2.21
## [55] boot_1.3-28.1 gld_2.6.6
## [57] future.apply_1.11.0 codetools_0.2-19
## [59] leiden_0.4.3.1 glue_1.6.2
## [61] vctrs_0.6.5 png_0.1-8
## [63] spam_2.10-0 neuralnet_1.44.2
## [65] cellranger_1.1.0 gtable_0.3.4
## [67] cachem_1.0.8 ks_1.14.1
## [69] xfun_0.41 S4Arrays_1.2.0
## [71] mime_0.12 pracma_2.4.4
## [73] survival_3.5-7 pbmcapply_1.5.1
## [75] iterators_1.0.14 statmod_1.5.0
## [77] ellipsis_0.3.2 fitdistrplus_1.1-11
## [79] ROCR_1.0-11 nlme_3.1-164
## [81] RcppAnnoy_0.0.21 bslib_0.6.1
## [83] irlba_2.3.5.1 KernSmooth_2.23-22
## [85] colorspace_2.1-0 Exact_3.2
## [87] tidyselect_1.2.0 compiler_4.3.2
## [89] rvest_1.0.3 expm_0.999-8
## [91] xml2_1.3.6 DelayedArray_0.28.0
## [93] scales_1.3.0 caTools_1.18.2
## [95] lmtest_0.9-40 stringr_1.5.1
## [97] digest_0.6.33 goftest_1.2-3
## [99] spatstat.utils_3.0-4 rmarkdown_2.25
## [101] RhpcBLASctl_0.23-42 XVector_0.42.0
## [103] htmltools_0.5.7 pkgconfig_2.0.3
## [105] highr_0.10 fastmap_1.1.1
## [107] rlang_1.1.2 GlobalOptions_0.1.2
## [109] htmlwidgets_1.6.4 shiny_1.8.0
## [111] jquerylib_0.1.4 farver_2.1.1
## [113] zoo_1.8-12 jsonlite_1.8.8
## [115] mclust_6.0.1 R.oo_1.25.0
## [117] RCurl_1.98-1.13 magrittr_2.0.3
## [119] GenomeInfoDbData_1.2.11 dotCall64_1.1-1
## [121] munsell_0.5.0 stringi_1.8.2
## [123] rootSolve_1.8.2.4 zlibbioc_1.48.0
## [125] MASS_7.3-60 plyr_1.8.9
## [127] parallel_4.3.2 listenv_0.9.0
## [129] lmom_3.0 deldir_2.0-2
## [131] splines_4.3.2 tensor_1.5
## [133] circlize_0.4.15 locfit_1.5-9.8
## [135] spatstat.geom_3.2-7 markdown_1.12
## [137] RcppHNSW_0.5.0 reshape2_1.4.4
## [139] evaluate_0.23 foreach_1.5.2
## [141] httpuv_1.6.13 RANN_2.6.1
## [143] tidyr_1.3.0 getopt_1.20.4
## [145] polyclip_1.10-6 future_1.33.0
## [147] clue_0.3-65 scattermore_1.2
## [149] xtable_1.8-4 e1071_1.7-14
## [151] RSpectra_0.16-1 later_1.3.2
## [153] viridisLite_0.4.2 class_7.3-22
## [155] tibble_3.2.1 cluster_2.1.6
## [157] globals_0.16.2