Repository 'scmap_scmap_cluster'
hg clone https://toolshed.g2.bx.psu.edu/repos/ebi-gxa/scmap_scmap_cluster

Changeset 11:3f16a94610df (2024-07-08)
Previous changeset 10:0a1dabbae5fa (2024-04-23)
Commit message:
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 9dbf2be568a0cea589fee8a42f070718d7966780-dirty
removed:
test-data/closest_cells.csv
test-data/closest_cells_clusters.rds
test-data/closest_cells_clusters.tsv
test-data/closest_cells_similarities.csv
test-data/index_cell.rds
test-data/index_cluster.png
test-data/index_cluster.rds
test-data/project_cluster.csv
test-data/project_cluster.tsv
test-data/select_features.png
test-data/select_features.rds
test-data/test_sce.rds
test-data/test_sce_processed.rds
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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/closest_cells.csv
--- a/test-data/closest_cells.csv Tue Apr 23 07:48:14 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
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@@ -1,6 +0,0 @@
-,Oocyte..1.RPKM.,Oocyte..2.RPKM.,Oocyte..3.RPKM.,Zygote..1.RPKM.,Zygote..2.RPKM.,Zygote..3.RPKM.,X2.cell.embryo.1..Cell.1.RPKM.,X2.cell.embryo.1..Cell.2.RPKM.,X2.cell.embryo.2..Cell.1.RPKM.,X2.cell.embryo.2..Cell.2.RPKM.,X2.cell.embryo.3..Cell.1.RPKM.,X2.cell.embryo.3..Cell.2.RPKM.,X4.cell.embryo.1..Cell.1.RPKM.,X4.cell.embryo.1..Cell.2.RPKM.,X4.cell.embryo.1..Cell.3.RPKM.,X4.cell.embryo.1..Cell.4.RPKM.,X4.cell.embryo.2..Cell.1.RPKM.,X4.cell.embryo.2..Cell.2.RPKM.,X4.cell.embryo.2..Cell.3.RPKM.,X4.cell.embryo.2..Cell.4.RPKM.,X4.cell.embryo.3..Cell.1.RPKM.,X4.cell.embryo.3..Cell.2.RPKM.,X4.cell.embryo.3..Cell.3.RPKM.,X4.cell.embryo.3..Cell.4.RPKM.,X8.cell.embryo.1..Cell.1.RPKM.,X8.cell.embryo.1..Cell.2.RPKM.,X8.cell.embryo.1..Cell.3.RPKM.,X8.cell.embryo.1..Cell.4.RPKM.,X8.cell.embryo.2..Cell.1.RPKM.,X8.cell.embryo.2..Cell.2.RPKM.,X8.cell.embryo.2..Cell.3.RPKM.,X8.cell.embryo.2..Cell.4.RPKM.,X8.cell.embryo.2..Cell.5.RPKM.,X8.cell.embryo.2..Cell.6.RPKM.,X8.cell.embryo.2..Cell.7.RPKM.,X8.cell.embryo.2..Cell.8.RPKM.,X8.cell.embryo.3..Cell.1.RPKM.,X8.cell.embryo.3..Cell.2.RPKM.,X8.cell.embryo.3..Cell.3.RPKM.,X8.cell.embryo.3..Cell.4.RPKM.,X8.cell.embryo.3..Cell.5.RPKM.,X8.cell.embryo.3..Cell.6.RPKM.,X8.cell.embryo.3..Cell.7.RPKM.,X8.cell.embryo.3..Cell.8.RPKM.,Morulae..1..Cell.1.RPKM.,Morulae..1..Cell.2.RPKM.,Morulae..1..Cell.3.RPKM.,Morulae..1..Cell.4.RPKM.,Morulae..1..Cell.5.RPKM.,Morulae..1..Cell.6.RPKM.,Morulae..1..Cell.7.RPKM.,Morulae..1..Cell.8.RPKM.,Morulae..2..Cell.1.RPKM.,Morulae..2..Cell.2.RPKM.,Morulae..2..Cell.3.RPKM.,Morulae..2..Cell.4.RPKM.,Morulae..2..Cell.5.RPKM.,Morulae..2..Cell.6.RPKM.,Morulae..2..Cell.7.RPKM.,Morulae..2..Cell.8.RPKM.,Late.blastocyst..1..Cell.1.RPKM.,Late.blastocyst..1..Cell.2.RPKM.,Late.blastocyst..1..Cell.3.RPKM.,Late.blastocyst..1..Cell.4.RPKM.,Late.blastocyst..1..Cell.5.RPKM.,Late.blastocyst..1..Cell.6.RPKM.,Late.blastocyst..1..Cell.7.RPKM.,Late.blastocyst..1..Cell.8.RPKM.,Late.blastocyst..1..Cell.9.RPKM.,Late.blastocyst..1..Cell.10.RPKM.,Late.blastocyst..1..Cell.11.RPKM.,Late.blastocyst..1..Cell.12.RPKM.,Late.blastocyst..2..Cell.1.RPKM.,Late.blastocyst..2..Cell.2.RPKM.,Late.blastocyst..2..Cell.3.RPKM.,Late.blastocyst..2..Cell.4.RPKM.,Late.blastocyst..2..Cell.5.RPKM.,Late.blastocyst..2..Cell.6.RPKM.,Late.blastocyst..2..Cell.7.RPKM.,Late.blastocyst..2..Cell.8.RPKM.,Late.blastocyst..2..Cell.9.RPKM.,Late.blastocyst..2..Cell.10.RPKM.,Late.blastocyst..3..Cell.1.RPKM.,Late.blastocyst..3..Cell.2.RPKM.,Late.blastocyst..3..Cell.3.RPKM.,Late.blastocyst..3..Cell.4.RPKM.,Late.blastocyst..3..Cell.5.RPKM.,Late.blastocyst..3..Cell.6.RPKM.,Late.blastocyst..3..Cell.7.RPKM.,Late.blastocyst..3..Cell.8.RPKM.
-1,1,1,1,6,6,6,10,10,10,10,12,10,23,19,24,22,14,13,24,13,21,24,23,24,28,27,27,25,34,35,36,32,34,34,35,30,37,42,44,38,38,37,39,39,48,49,47,49,46,49,49,27,57,54,55,55,54,51,55,54,62,67,67,63,71,67,62,66,69,69,71,78,65,87,84,78,78,81,82,82,78,81,88,84,90,75,83,78,88,88
-2,2,2,2,11,12,11,7,7,7,7,7,7,13,13,13,14,24,22,14,20,22,23,21,21,27,25,25,27,36,30,30,34,30,33,34,36,38,37,39,39,42,38,43,43,45,46,52,45,51,54,51,26,49,57,56,59,57,59,56,60,70,71,62,67,62,71,69,62,72,62,63,70,76,86,86,81,79,78,76,80,82,82,87,88,89,74,74,88,85,90
-3,3,3,3,12,10,12,8,8,8,8,8,11,14,24,23,21,19,16,19,23,23,18,22,22,26,26,26,26,30,36,34,36,33,36,36,35,40,40,40,41,40,40,38,44,49,54,26,51,54,51,50,28,51,50,59,60,53,58,58,53,61,61,63,64,69,66,64,82,70,70,72,81,71,75,75,76,81,76,78,76,81,78,75,80,88,86,86,90,77,81
-4,6,7,6,4,11,4,9,9,9,9,9,12,24,14,16,16,23,18,23,18,24,13,13,13,40,38,40,38,29,29,29,29,29,29,29,29,42,38,38,37,37,42,37,41,51,50,28,48,50,50,53,47,54,53,54,58,60,56,54,50,71,68,82,65,65,68,67,68,67,65,65,72,73,73,80,82,82,79,79,75,76,79,86,73,85,83,87,89,89,85
-5,5,5,5,5,5,5,12,12,12,12,11,5,22,23,15,24,17,21,17,22,18,22,24,23,25,28,28,28,31,31,31,35,36,35,31,31,41,41,41,40,41,41,41,38,53,51,27,50,49,46,46,52,53,51,58,56,51,55,59,51,65,62,71,72,70,72,66,78,65,72,69,65,70,74,74,79,77,82,77,84,72,76,83,75,72,87,75,85,90,89
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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/closest_cells_clusters.rds
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Binary file test-data/closest_cells_clusters.rds has changed
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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/closest_cells_clusters.tsv
--- a/test-data/closest_cells_clusters.tsv Tue Apr 23 07:48:14 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
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@@ -1,91 +0,0 @@
-cell scmap_cluster_labs scmap_cluster_siml combined_labs
-Oocyte..1.RPKM. zygote 0.972457633278923 zygote
-Oocyte..2.RPKM. zygote 0.972353568313767 zygote
-Oocyte..3.RPKM. zygote 0.973371064673993 zygote
-Zygote..1.RPKM. zygote 0.97866272698663 zygote
-Zygote..2.RPKM. zygote 0.979717800854604 zygote
-Zygote..3.RPKM. zygote 0.97984002400711 zygote
-X2.cell.embryo.1..Cell.1.RPKM. 2cell 0.975860542596827 2cell
-X2.cell.embryo.1..Cell.2.RPKM. 2cell 0.975977483944058 2cell
-X2.cell.embryo.2..Cell.1.RPKM. 2cell 0.97534563242085 2cell
-X2.cell.embryo.2..Cell.2.RPKM. 2cell 0.976532855604968 2cell
-X2.cell.embryo.3..Cell.1.RPKM. 2cell 0.975715675528499 2cell
-X2.cell.embryo.3..Cell.2.RPKM. 2cell 0.976512040050606 2cell
-X4.cell.embryo.1..Cell.1.RPKM. 4cell 0.976740874886324 4cell
-X4.cell.embryo.1..Cell.2.RPKM. 4cell 0.970679786566831 4cell
-X4.cell.embryo.1..Cell.3.RPKM. 4cell 0.971937340916803 4cell
-X4.cell.embryo.1..Cell.4.RPKM. 4cell 0.974396302382197 4cell
-X4.cell.embryo.2..Cell.1.RPKM. 4cell 0.968256593061058 4cell
-X4.cell.embryo.2..Cell.2.RPKM. 4cell 0.976000962530563 4cell
-X4.cell.embryo.2..Cell.3.RPKM. 4cell 0.974456795916042 4cell
-X4.cell.embryo.2..Cell.4.RPKM. 4cell 0.975046287156331 4cell
-X4.cell.embryo.3..Cell.1.RPKM. 4cell 0.980907467386254 4cell
-X4.cell.embryo.3..Cell.2.RPKM. 4cell 0.979702774175472 4cell
-X4.cell.embryo.3..Cell.3.RPKM. 4cell 0.979541752074044 4cell
-X4.cell.embryo.3..Cell.4.RPKM. 4cell 0.979397781619405 4cell
-X8.cell.embryo.1..Cell.1.RPKM. 8cell 0.965866705260469 8cell
-X8.cell.embryo.1..Cell.2.RPKM. 8cell 0.971874515954174 8cell
-X8.cell.embryo.1..Cell.3.RPKM. 8cell 0.970182782492083 8cell
-X8.cell.embryo.1..Cell.4.RPKM. 8cell 0.971803309754166 8cell
-X8.cell.embryo.2..Cell.1.RPKM. 8cell 0.975660495961879 8cell
-X8.cell.embryo.2..Cell.2.RPKM. 8cell 0.978697234565528 8cell
-X8.cell.embryo.2..Cell.3.RPKM. 8cell 0.980500043303112 8cell
-X8.cell.embryo.2..Cell.4.RPKM. 8cell 0.973337322820485 8cell
-X8.cell.embryo.2..Cell.5.RPKM. 8cell 0.97050828475866 8cell
-X8.cell.embryo.2..Cell.6.RPKM. 8cell 0.97427362884691 8cell
-X8.cell.embryo.2..Cell.7.RPKM. 8cell 0.977362207861906 8cell
-X8.cell.embryo.2..Cell.8.RPKM. 8cell 0.978677072589576 8cell
-X8.cell.embryo.3..Cell.1.RPKM. 8cell 0.97989418833849 8cell
-X8.cell.embryo.3..Cell.2.RPKM. 8cell 0.97485334405104 8cell
-X8.cell.embryo.3..Cell.3.RPKM. 8cell 0.975859793936309 8cell
-X8.cell.embryo.3..Cell.4.RPKM. 8cell 0.981490977097 8cell
-X8.cell.embryo.3..Cell.5.RPKM. 8cell 0.981029618769028 8cell
-X8.cell.embryo.3..Cell.6.RPKM. 8cell 0.969682040359692 8cell
-X8.cell.embryo.3..Cell.7.RPKM. 8cell 0.978148246228053 8cell
-X8.cell.embryo.3..Cell.8.RPKM. 8cell 0.970328380893092 8cell
-Morulae..1..Cell.1.RPKM. 16cell 0.959918851368306 16cell
-Morulae..1..Cell.2.RPKM. 16cell 0.973499865778146 16cell
-Morulae..1..Cell.3.RPKM. 16cell 0.905095452914499 16cell
-Morulae..1..Cell.4.RPKM. 16cell 0.975565450656408 16cell
-Morulae..1..Cell.5.RPKM. 16cell 0.972676900609201 16cell
-Morulae..1..Cell.6.RPKM. 16cell 0.965520701954854 16cell
-Morulae..1..Cell.7.RPKM. 16cell 0.974360238512134 16cell
-Morulae..1..Cell.8.RPKM. 16cell 0.89292960975856 16cell
-Morulae..2..Cell.1.RPKM. 16cell 0.973068555642167 16cell
-Morulae..2..Cell.2.RPKM. 16cell 0.972782844321894 16cell
-Morulae..2..Cell.3.RPKM. 16cell 0.964788103357924 16cell
-Morulae..2..Cell.4.RPKM. 16cell 0.966128218632723 16cell
-Morulae..2..Cell.5.RPKM. 16cell 0.959906305241092 16cell
-Morulae..2..Cell.6.RPKM. 16cell 0.973292643125946 16cell
-Morulae..2..Cell.7.RPKM. 16cell 0.972824053645381 16cell
-Morulae..2..Cell.8.RPKM. 16cell 0.966191355651732 16cell
-Late.blastocyst..1..Cell.1.RPKM. blast 0.954545456827362 blast
-Late.blastocyst..1..Cell.2.RPKM. blast 0.959479973403999 blast
-Late.blastocyst..1..Cell.3.RPKM. blast 0.95220936077016 blast
-Late.blastocyst..1..Cell.4.RPKM. blast 0.950460474784597 blast
-Late.blastocyst..1..Cell.5.RPKM. blast 0.952198095399196 blast
-Late.blastocyst..1..Cell.6.RPKM. blast 0.947932383616434 blast
-Late.blastocyst..1..Cell.7.RPKM. blast 0.953028259974652 blast
-Late.blastocyst..1..Cell.8.RPKM. blast 0.955242273190534 blast
-Late.blastocyst..1..Cell.9.RPKM. blast 0.945069684662869 blast
-Late.blastocyst..1..Cell.10.RPKM. blast 0.948997282545248 blast
-Late.blastocyst..1..Cell.11.RPKM. blast 0.957933181323242 blast
-Late.blastocyst..1..Cell.12.RPKM. blast 0.956477894281845 blast
-Late.blastocyst..2..Cell.1.RPKM. blast 0.951896178479488 blast
-Late.blastocyst..2..Cell.2.RPKM. blast 0.931976810185073 blast
-Late.blastocyst..2..Cell.3.RPKM. blast 0.935585386310024 blast
-Late.blastocyst..2..Cell.4.RPKM. blast 0.955286040867509 blast
-Late.blastocyst..2..Cell.5.RPKM. blast 0.947612540470952 blast
-Late.blastocyst..2..Cell.6.RPKM. blast 0.956938141272494 blast
-Late.blastocyst..2..Cell.7.RPKM. blast 0.95796374641168 blast
-Late.blastocyst..2..Cell.8.RPKM. blast 0.928236097734115 blast
-Late.blastocyst..2..Cell.9.RPKM. blast 0.948137126389516 blast
-Late.blastocyst..2..Cell.10.RPKM. blast 0.955220996266827 blast
-Late.blastocyst..3..Cell.1.RPKM. blast 0.897154517212312 blast
-Late.blastocyst..3..Cell.2.RPKM. blast 0.916287566525039 blast
-Late.blastocyst..3..Cell.3.RPKM. blast 0.949016031543691 blast
-Late.blastocyst..3..Cell.4.RPKM. blast 0.915241215759076 blast
-Late.blastocyst..3..Cell.5.RPKM. blast 0.924787897158703 blast
-Late.blastocyst..3..Cell.6.RPKM. blast 0.943459425658745 blast
-Late.blastocyst..3..Cell.7.RPKM. blast 0.949859434636659 blast
-Late.blastocyst..3..Cell.8.RPKM. blast 0.946067646237195 blast
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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/closest_cells_similarities.csv
--- a/test-data/closest_cells_similarities.csv Tue Apr 23 07:48:14 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
b
b'@@ -1,6 +0,0 @@\n-,Oocyte..1.RPKM.,Oocyte..2.RPKM.,Oocyte..3.RPKM.,Zygote..1.RPKM.,Zygote..2.RPKM.,Zygote..3.RPKM.,X2.cell.embryo.1..Cell.1.RPKM.,X2.cell.embryo.1..Cell.2.RPKM.,X2.cell.embryo.2..Cell.1.RPKM.,X2.cell.embryo.2..Cell.2.RPKM.,X2.cell.embryo.3..Cell.1.RPKM.,X2.cell.embryo.3..Cell.2.RPKM.,X4.cell.embryo.1..Cell.1.RPKM.,X4.cell.embryo.1..Cell.2.RPKM.,X4.cell.embryo.1..Cell.3.RPKM.,X4.cell.embryo.1..Cell.4.RPKM.,X4.cell.embryo.2..Cell.1.RPKM.,X4.cell.embryo.2..Cell.2.RPKM.,X4.cell.embryo.2..Cell.3.RPKM.,X4.cell.embryo.2..Cell.4.RPKM.,X4.cell.embryo.3..Cell.1.RPKM.,X4.cell.embryo.3..Cell.2.RPKM.,X4.cell.embryo.3..Cell.3.RPKM.,X4.cell.embryo.3..Cell.4.RPKM.,X8.cell.embryo.1..Cell.1.RPKM.,X8.cell.embryo.1..Cell.2.RPKM.,X8.cell.embryo.1..Cell.3.RPKM.,X8.cell.embryo.1..Cell.4.RPKM.,X8.cell.embryo.2..Cell.1.RPKM.,X8.cell.embryo.2..Cell.2.RPKM.,X8.cell.embryo.2..Cell.3.RPKM.,X8.cell.embryo.2..Cell.4.RPKM.,X8.cell.embryo.2..Cell.5.RPKM.,X8.cell.embryo.2..Cell.6.RPKM.,X8.cell.embryo.2..Cell.7.RPKM.,X8.cell.embryo.2..Cell.8.RPKM.,X8.cell.embryo.3..Cell.1.RPKM.,X8.cell.embryo.3..Cell.2.RPKM.,X8.cell.embryo.3..Cell.3.RPKM.,X8.cell.embryo.3..Cell.4.RPKM.,X8.cell.embryo.3..Cell.5.RPKM.,X8.cell.embryo.3..Cell.6.RPKM.,X8.cell.embryo.3..Cell.7.RPKM.,X8.cell.embryo.3..Cell.8.RPKM.,Morulae..1..Cell.1.RPKM.,Morulae..1..Cell.2.RPKM.,Morulae..1..Cell.3.RPKM.,Morulae..1..Cell.4.RPKM.,Morulae..1..Cell.5.RPKM.,Morulae..1..Cell.6.RPKM.,Morulae..1..Cell.7.RPKM.,Morulae..1..Cell.8.RPKM.,Morulae..2..Cell.1.RPKM.,Morulae..2..Cell.2.RPKM.,Morulae..2..Cell.3.RPKM.,Morulae..2..Cell.4.RPKM.,Morulae..2..Cell.5.RPKM.,Morulae..2..Cell.6.RPKM.,Morulae..2..Cell.7.RPKM.,Morulae..2..Cell.8.RPKM.,Late.blastocyst..1..Cell.1.RPKM.,Late.blastocyst..1..Cell.2.RPKM.,Late.blastocyst..1..Cell.3.RPKM.,Late.blastocyst..1..Cell.4.RPKM.,Late.blastocyst..1..Cell.5.RPKM.,Late.blastocyst..1..Cell.6.RPKM.,Late.blastocyst..1..Cell.7.RPKM.,Late.blastocyst..1..Cell.8.RPKM.,Late.blastocyst..1..Cell.9.RPKM.,Late.blastocyst..1..Cell.10.RPKM.,Late.blastocyst..1..Cell.11.RPKM.,Late.blastocyst..1..Cell.12.RPKM.,Late.blastocyst..2..Cell.1.RPKM.,Late.blastocyst..2..Cell.2.RPKM.,Late.blastocyst..2..Cell.3.RPKM.,Late.blastocyst..2..Cell.4.RPKM.,Late.blastocyst..2..Cell.5.RPKM.,Late.blastocyst..2..Cell.6.RPKM.,Late.blastocyst..2..Cell.7.RPKM.,Late.blastocyst..2..Cell.8.RPKM.,Late.blastocyst..2..Cell.9.RPKM.,Late.blastocyst..2..Cell.10.RPKM.,Late.blastocyst..3..Cell.1.RPKM.,Late.blastocyst..3..Cell.2.RPKM.,Late.blastocyst..3..Cell.3.RPKM.,Late.blastocyst..3..Cell.4.RPKM.,Late.blastocyst..3..Cell.5.RPKM.,Late.blastocyst..3..Cell.6.RPKM.,Late.blastocyst..3..Cell.7.RPKM.,Late.blastocyst..3..Cell.8.RPKM.\n-1,0.974273699811975,0.973659311436167,0.974854220234444,0.97839753346497,0.979490174962032,0.980115537598401,0.976313835558767,0.976881116973313,0.975901392182175,0.977322845448825,0.976323350516014,0.976971559860292,0.976320366157395,0.969912061538871,0.968501468487668,0.971522498841011,0.964951572472287,0.972748756493633,0.971942905027406,0.972017001342311,0.980520343865064,0.978080837270881,0.980078705456514,0.979798181564745,0.966241474136935,0.969158473501728,0.968707192268454,0.969841095031548,0.974854612410912,0.976503242175562,0.979804630823918,0.976544473170974,0.969481019998013,0.976489477308787,0.979995497607925,0.979854110006233,0.981867832635268,0.974786591856287,0.973765988696476,0.977837020195143,0.982102656773436,0.970638900011281,0.974968488962187,0.969481110283021,0.950812756659853,0.96807907709823,0.91630840568286,0.970572967922616,0.969146983045072,0.963005588968003,0.972427039750112,0.726218083982927,0.969017360461502,0.974170553961338,0.964279804847546,0.957081439198935,0.956990695530537,0.947526173473035,0.961646669180513,0.963312355197477,0.929414192606584,0.945349776265469,0.931894436659203,0.928302728076479,0.93495880629305,0.928964466633903,0.935785405180646,0.946332771937332,0.944210967521674,0.935446129048361,0.957020095156881,0.936513899155052,0.941244285216586,'..b'549,0.970520527970828,0.968478100687963,0.964493691190741,0.972285524744667,0.724424734546886,0.969559396842649,0.969364813048294,0.958239742574716,0.944755601653579,0.959029210899153,0.968964013352534,0.963723725469498,0.960711969960917,0.949879991563679,0.942457767725231,0.950427652531018,0.948091129226388,0.935725154213454,0.947068372664074,0.932792955705649,0.939589564737004,0.929847717771756,0.950599081967672,0.940231698364827,0.939390494922626,0.938175389389597,0.892258057827176,0.926372907311768,0.95245650968153,0.922841768364733,0.937416110024372,0.933878349854862,0.878774403798334,0.944167607789112,0.9386829330418,0.830037046627661,0.883713143953103,0.928636951069851,0.91354245801598,0.86465693599049,0.905142929288076,0.911070328984465,0.90368380440602\n-4,0.969539415685062,0.968605789622234,0.969975869820421,0.978880784666248,0.979406018332084,0.979819636687998,0.976293636860104,0.976907817743082,0.975961272994989,0.977298240230832,0.976152456170403,0.977158123689469,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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/index_cell.rds
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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/index_cluster.png
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Binary file test-data/index_cluster.png has changed
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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/index_cluster.rds
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Binary file test-data/index_cluster.rds has changed
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diff -r 0a1dabbae5fa -r 3f16a94610df test-data/project_cluster.csv
--- a/test-data/project_cluster.csv Tue Apr 23 07:48:14 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
b
@@ -1,91 +0,0 @@
-,cell,scmap_cluster_labs,scmap_cluster_siml,combined_labs
-1,Oocyte..1.RPKM.,zygote,0.994760865096957,zygote
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-61,Late.blastocyst..1..Cell.1.RPKM.,blast,0.946030792526566,blast
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-82,Late.blastocyst..2..Cell.10.RPKM.,blast,0.966000611704395,blast
-83,Late.blastocyst..3..Cell.1.RPKM.,blast,0.830150497819373,blast
-84,Late.blastocyst..3..Cell.2.RPKM.,blast,0.894937328405391,blast
-85,Late.blastocyst..3..Cell.3.RPKM.,blast,0.948131108497039,blast
-86,Late.blastocyst..3..Cell.4.RPKM.,blast,0.832148158277939,blast
-87,Late.blastocyst..3..Cell.5.RPKM.,blast,0.840068518192648,blast
-88,Late.blastocyst..3..Cell.6.RPKM.,blast,0.923562228265187,blast
-89,Late.blastocyst..3..Cell.7.RPKM.,blast,0.9377231069535,blast
-90,Late.blastocyst..3..Cell.8.RPKM.,blast,0.917408664281774,blast
b
diff -r 0a1dabbae5fa -r 3f16a94610df test-data/project_cluster.tsv
--- a/test-data/project_cluster.tsv Tue Apr 23 07:48:14 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
b
@@ -1,91 +0,0 @@
-cell scmap_cluster_labs scmap_cluster_siml combined_labs
-1 Oocyte..1.RPKM. zygote 0.994760865096957 zygote
-2 Oocyte..2.RPKM. zygote 0.995125744257364 zygote
-3 Oocyte..3.RPKM. zygote 0.995591648577841 zygote
-4 Zygote..1.RPKM. 2cell 0.993401179090721 2cell
-5 Zygote..2.RPKM. 2cell 0.995369354590786 2cell
-6 Zygote..3.RPKM. 2cell 0.98710411159295 2cell
-7 X2.cell.embryo.1..Cell.1.RPKM. 2cell 0.998499099285601 2cell
-8 X2.cell.embryo.1..Cell.2.RPKM. 2cell 0.998846842740487 2cell
-9 X2.cell.embryo.2..Cell.1.RPKM. 2cell 0.998606947244777 2cell
-10 X2.cell.embryo.2..Cell.2.RPKM. 2cell 0.998676368789508 2cell
-11 X2.cell.embryo.3..Cell.1.RPKM. 2cell 0.997663075228921 2cell
-12 X2.cell.embryo.3..Cell.2.RPKM. 2cell 0.99770244480819 2cell
-13 X4.cell.embryo.1..Cell.1.RPKM. 4cell 0.990134433448036 4cell
-14 X4.cell.embryo.1..Cell.2.RPKM. 4cell 0.983906001584324 4cell
-15 X4.cell.embryo.1..Cell.3.RPKM. 4cell 0.983025466176017 4cell
-16 X4.cell.embryo.1..Cell.4.RPKM. 4cell 0.986969369421969 4cell
-17 X4.cell.embryo.2..Cell.1.RPKM. 4cell 0.978600490705419 4cell
-18 X4.cell.embryo.2..Cell.2.RPKM. 4cell 0.990517207278532 4cell
-19 X4.cell.embryo.2..Cell.3.RPKM. 4cell 0.986056209223088 4cell
-20 X4.cell.embryo.2..Cell.4.RPKM. 4cell 0.988962130990086 4cell
-21 X4.cell.embryo.3..Cell.1.RPKM. 4cell 0.995116150658076 4cell
-22 X4.cell.embryo.3..Cell.2.RPKM. 4cell 0.99274523738472 4cell
-23 X4.cell.embryo.3..Cell.3.RPKM. 4cell 0.995763679518167 4cell
-24 X4.cell.embryo.3..Cell.4.RPKM. 4cell 0.995423880082539 4cell
-25 X8.cell.embryo.1..Cell.1.RPKM. unassigned 0.589322049052091 unassigned
-26 X8.cell.embryo.1..Cell.2.RPKM. 8cell 0.927499839382219 8cell
-27 X8.cell.embryo.1..Cell.3.RPKM. 8cell 0.921141336301299 8cell
-28 X8.cell.embryo.1..Cell.4.RPKM. unassigned 0.59175824082949 unassigned
-29 X8.cell.embryo.2..Cell.1.RPKM. 8cell 0.974849607680171 8cell
-30 X8.cell.embryo.2..Cell.2.RPKM. 8cell 0.985093729996275 8cell
-31 X8.cell.embryo.2..Cell.3.RPKM. 8cell 0.986839564389094 8cell
-32 X8.cell.embryo.2..Cell.4.RPKM. 8cell 0.96892413940019 8cell
-33 X8.cell.embryo.2..Cell.5.RPKM. 8cell 0.96431663761681 8cell
-34 X8.cell.embryo.2..Cell.6.RPKM. 8cell 0.97148526041646 8cell
-35 X8.cell.embryo.2..Cell.7.RPKM. 8cell 0.976238026438341 8cell
-36 X8.cell.embryo.2..Cell.8.RPKM. 8cell 0.980695252466275 8cell
-37 X8.cell.embryo.3..Cell.1.RPKM. 8cell 0.97966322970515 8cell
-38 X8.cell.embryo.3..Cell.2.RPKM. 8cell 0.975362675268717 8cell
-39 X8.cell.embryo.3..Cell.3.RPKM. 8cell 0.975167821442514 8cell
-40 X8.cell.embryo.3..Cell.4.RPKM. 8cell 0.982088540632061 8cell
-41 X8.cell.embryo.3..Cell.5.RPKM. 8cell 0.983236065207029 8cell
-42 X8.cell.embryo.3..Cell.6.RPKM. 8cell 0.96962809093506 8cell
-43 X8.cell.embryo.3..Cell.7.RPKM. 8cell 0.980186666445985 8cell
-44 X8.cell.embryo.3..Cell.8.RPKM. 8cell 0.965226853665217 8cell
-45 Morulae..1..Cell.1.RPKM. 16cell 0.950320842050556 16cell
-46 Morulae..1..Cell.2.RPKM. 16cell 0.979324688404905 16cell
-47 Morulae..1..Cell.3.RPKM. 8cell 0.753074916100457 8cell
-48 Morulae..1..Cell.4.RPKM. 16cell 0.975984157933152 16cell
-49 Morulae..1..Cell.5.RPKM. 16cell 0.978965252255204 16cell
-50 Morulae..1..Cell.6.RPKM. 16cell 0.972542473750977 16cell
-51 Morulae..1..Cell.7.RPKM. 16cell 0.980084685003656 16cell
-52 Morulae..1..Cell.8.RPKM. 8cell 0.701585854974489 8cell
-53 Morulae..2..Cell.1.RPKM. 16cell 0.980419529105244 16cell
-54 Morulae..2..Cell.2.RPKM. 16cell 0.980851332000861 16cell
-55 Morulae..2..Cell.3.RPKM. 16cell 0.964267219512788 16cell
-56 Morulae..2..Cell.4.RPKM. 16cell 0.957787782168123 16cell
-57 Morulae..2..Cell.5.RPKM. 16cell 0.965485721368535 16cell
-58 Morulae..2..Cell.6.RPKM. 16cell 0.957697139912933 16cell
-59 Morulae..2..Cell.7.RPKM. 16cell 0.958777912908415 16cell
-60 Morulae..2..Cell.8.RPKM. 16cell 0.973138715636811 16cell
-61 Late.blastocyst..1..Cell.1.RPKM. blast 0.946030792526566 blast
-62 Late.blastocyst..1..Cell.2.RPKM. blast 0.962138004343889 blast
-63 Late.blastocyst..1..Cell.3.RPKM. blast 0.950748704451565 blast
-64 Late.blastocyst..1..Cell.4.RPKM. blast 0.957227580718105 blast
-65 Late.blastocyst..1..Cell.5.RPKM. blast 0.95434894493587 blast
-66 Late.blastocyst..1..Cell.6.RPKM. blast 0.955943421895937 blast
-67 Late.blastocyst..1..Cell.7.RPKM. blast 0.956356985705706 blast
-68 Late.blastocyst..1..Cell.8.RPKM. blast 0.970493175210153 blast
-69 Late.blastocyst..1..Cell.9.RPKM. blast 0.945326349715578 blast
-70 Late.blastocyst..1..Cell.10.RPKM. blast 0.956481724858848 blast
-71 Late.blastocyst..1..Cell.11.RPKM. blast 0.956159281369748 blast
-72 Late.blastocyst..1..Cell.12.RPKM. blast 0.96425809974187 blast
-73 Late.blastocyst..2..Cell.1.RPKM. blast 0.954566650006314 blast
-74 Late.blastocyst..2..Cell.2.RPKM. blast 0.859795704593317 blast
-75 Late.blastocyst..2..Cell.3.RPKM. blast 0.881194674798541 blast
-76 Late.blastocyst..2..Cell.4.RPKM. blast 0.96703530306384 blast
-77 Late.blastocyst..2..Cell.5.RPKM. blast 0.958079246177835 blast
-78 Late.blastocyst..2..Cell.6.RPKM. blast 0.959780240457135 blast
-79 Late.blastocyst..2..Cell.7.RPKM. blast 0.957562095748124 blast
-80 Late.blastocyst..2..Cell.8.RPKM. blast 0.908172032074667 blast
-81 Late.blastocyst..2..Cell.9.RPKM. blast 0.958716824617989 blast
-82 Late.blastocyst..2..Cell.10.RPKM. blast 0.966000611704395 blast
-83 Late.blastocyst..3..Cell.1.RPKM. blast 0.830150497819373 blast
-84 Late.blastocyst..3..Cell.2.RPKM. blast 0.894937328405391 blast
-85 Late.blastocyst..3..Cell.3.RPKM. blast 0.948131108497039 blast
-86 Late.blastocyst..3..Cell.4.RPKM. blast 0.832148158277939 blast
-87 Late.blastocyst..3..Cell.5.RPKM. blast 0.840068518192648 blast
-88 Late.blastocyst..3..Cell.6.RPKM. blast 0.923562228265187 blast
-89 Late.blastocyst..3..Cell.7.RPKM. blast 0.9377231069535 blast
-90 Late.blastocyst..3..Cell.8.RPKM. blast 0.917408664281774 blast
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