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Title: Commits · lumenstech/samplot · GitHub

Open Graph Title: Commits · lumenstech/samplot

X Title: Commits · lumenstech/samplot

Description: Plot structural variant signals from many BAMs and CRAMs - Commits · lumenstech/samplot

Open Graph Description: Plot structural variant signals from many BAMs and CRAMs - Commits · lumenstech/samplot

X Description: Plot structural variant signals from many BAMs and CRAMs - Commits · lumenstech/samplot

Opengraph URL: https://github.com/lumenstech/samplot

X: @github

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Merge pull request #194 from gekkonid/py311https://github.com/lumenstech/samplot/commit/2929e4a90e5470dc1cb219667606c458b7087265
https://github.com/ryanlayer
ryanlayerhttps://github.com/lumenstech/samplot/commits?author=ryanlayer
2929e4ahttps://github.com/lumenstech/samplot/commit/2929e4a90e5470dc1cb219667606c458b7087265
https://github.com/lumenstech/samplot/tree/2929e4a90e5470dc1cb219667606c458b7087265
Update samplot/samplot.pyhttps://github.com/lumenstech/samplot/commit/8e5f9c9e9278bcf428df361beb5c5e7fd3c3d18f
kdm9https://github.com/lumenstech/samplot/commits?author=kdm9
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
8e5f9c9https://github.com/lumenstech/samplot/commit/8e5f9c9e9278bcf428df361beb5c5e7fd3c3d18f
https://github.com/lumenstech/samplot/tree/8e5f9c9e9278bcf428df361beb5c5e7fd3c3d18f
fixes for python 3.11https://github.com/lumenstech/samplot/commit/444f3bdde8d74e86173ce6dee824fccfae409371
https://github.com/kdm9
kdm9https://github.com/lumenstech/samplot/commits?author=kdm9
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https://github.com/lumenstech/samplot/tree/444f3bdde8d74e86173ce6dee824fccfae409371
Merge pull request #193 from pontushojer/warn-missing-sampleshttps://github.com/lumenstech/samplot/commit/dfc8609dbdd028b67f6e8ff2bb3437c5161c6b59
https://github.com/ryanlayer
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dfc8609https://github.com/lumenstech/samplot/commit/dfc8609dbdd028b67f6e8ff2bb3437c5161c6b59
https://github.com/lumenstech/samplot/tree/dfc8609dbdd028b67f6e8ff2bb3437c5161c6b59
Merge pull request #192 from pontushojer/fix-189https://github.com/lumenstech/samplot/commit/09aab3dbb1041a64043143c96a2ba95d1d963d8d
https://github.com/ryanlayer
ryanlayerhttps://github.com/lumenstech/samplot/commits?author=ryanlayer
09aab3dhttps://github.com/lumenstech/samplot/commit/09aab3dbb1041a64043143c96a2ba95d1d963d8d
https://github.com/lumenstech/samplot/tree/09aab3dbb1041a64043143c96a2ba95d1d963d8d
Merge pull request #191 from pontushojer/fix-188https://github.com/lumenstech/samplot/commit/85fa8a6273a00cc187d8ce9e90d2652bb9c27a8c
https://github.com/ryanlayer
ryanlayerhttps://github.com/lumenstech/samplot/commits?author=ryanlayer
85fa8a6https://github.com/lumenstech/samplot/commit/85fa8a6273a00cc187d8ce9e90d2652bb9c27a8c
https://github.com/lumenstech/samplot/tree/85fa8a6273a00cc187d8ce9e90d2652bb9c27a8c
warn if missing samples in BAMs or VCFhttps://github.com/lumenstech/samplot/commit/b0e450ac55c1be249c11baecfec1af7a4437d326
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
b0e450ahttps://github.com/lumenstech/samplot/commit/b0e450ac55c1be249c11baecfec1af7a4437d326
https://github.com/lumenstech/samplot/tree/b0e450ac55c1be249c11baecfec1af7a4437d326
enable dysgu translocationshttps://github.com/lumenstech/samplot/commit/ef7a2941e148081ea936f64c9af08543404f3977
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
ef7a294https://github.com/lumenstech/samplot/commit/ef7a2941e148081ea936f64c9af08543404f3977
https://github.com/lumenstech/samplot/tree/ef7a2941e148081ea936f64c9af08543404f3977
temporary fix #189 by limiting matplotlib to <3.7https://github.com/lumenstech/samplot/commit/514cc4055f33bd382f451e542e6c8db3fa198902
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
514cc40https://github.com/lumenstech/samplot/commit/514cc4055f33bd382f451e542e6c8db3fa198902
https://github.com/lumenstech/samplot/tree/514cc4055f33bd382f451e542e6c8db3fa198902
fix bug where 2nd breakpoint position not in INFO/END for interchromosomal translocationshttps://github.com/lumenstech/samplot/commit/55a85fbaef996a72d508a3ac18190462f54ef417
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
55a85fbhttps://github.com/lumenstech/samplot/commit/55a85fbaef996a72d508a3ac18190462f54ef417
https://github.com/lumenstech/samplot/tree/55a85fbaef996a72d508a3ac18190462f54ef417
fix missing space in template for translocationshttps://github.com/lumenstech/samplot/commit/b3a2f7ae79a90513996584a5d4906afe6d9aea34
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
b3a2f7ahttps://github.com/lumenstech/samplot/commit/b3a2f7ae79a90513996584a5d4906afe6d9aea34
https://github.com/lumenstech/samplot/tree/b3a2f7ae79a90513996584a5d4906afe6d9aea34
Add parenthesishttps://github.com/lumenstech/samplot/commit/26337772ce4b3890b3a3fc9d62260d4fc241d691
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
2633777https://github.com/lumenstech/samplot/commit/26337772ce4b3890b3a3fc9d62260d4fc241d691
https://github.com/lumenstech/samplot/tree/26337772ce4b3890b3a3fc9d62260d4fc241d691
fix translocation handling and add log messageshttps://github.com/lumenstech/samplot/commit/ccefb81ab864f9817ac2cc431a73b3988554a777
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
ccefb81https://github.com/lumenstech/samplot/commit/ccefb81ab864f9817ac2cc431a73b3988554a777
https://github.com/lumenstech/samplot/tree/ccefb81ab864f9817ac2cc431a73b3988554a777
Merge pull request #184 from pontushojer/fix-testshttps://github.com/lumenstech/samplot/commit/f4490b21c2cd9ca187d3977c17348efbf9cac43d
https://github.com/ryanlayer
ryanlayerhttps://github.com/lumenstech/samplot/commits?author=ryanlayer
f4490b2https://github.com/lumenstech/samplot/commit/f4490b21c2cd9ca187d3977c17348efbf9cac43d
https://github.com/lumenstech/samplot/tree/f4490b21c2cd9ca187d3977c17348efbf9cac43d
Remove `np.int` depreciated in numpy 1.24.0https://github.com/lumenstech/samplot/commit/44d8685e91885e93f29a96a6e023e232667d03cc
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
44d8685https://github.com/lumenstech/samplot/commit/44d8685e91885e93f29a96a6e023e232667d03cc
https://github.com/lumenstech/samplot/tree/44d8685e91885e93f29a96a6e023e232667d03cc
Merge pull request #183 from pontushojer/jitter-longhttps://github.com/lumenstech/samplot/commit/db2ba62a68b51cd44faeb18f307561e3f14fbb89
https://github.com/ryanlayer
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https://github.com/lumenstech/samplot/tree/db2ba62a68b51cd44faeb18f307561e3f14fbb89
Merge pull request #182 from pontushojer/fix-171https://github.com/lumenstech/samplot/commit/bb24f36a78fe0b471554542e4370e14f93a7a002
https://github.com/ryanlayer
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https://github.com/lumenstech/samplot/tree/bb24f36a78fe0b471554542e4370e14f93a7a002
Merge pull request #179 from pontushojer/coverage-speeduphttps://github.com/lumenstech/samplot/commit/dbf629f2c7d4a23ec9616c0dfc0b32e73ad47bce
https://github.com/ryanlayer
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https://github.com/lumenstech/samplot/tree/dbf629f2c7d4a23ec9616c0dfc0b32e73ad47bce
Merge pull request #178 from pontushojer/variants-statshttps://github.com/lumenstech/samplot/commit/011c793c74799df98c71d584602e5100f7f25af8
https://github.com/ryanlayer
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https://github.com/lumenstech/samplot/tree/011c793c74799df98c71d584602e5100f7f25af8
Merge pull request #177 from pontushojer/masterhttps://github.com/lumenstech/samplot/commit/d47574f8f3a91976c6417dee8e0216f82d2805f4
https://github.com/ryanlayer
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https://github.com/lumenstech/samplot/tree/d47574f8f3a91976c6417dee8e0216f82d2805f4
Use same offset at both ends of bent line and make the line bends up for large jitter_bounds.https://github.com/lumenstech/samplot/commit/202b1038e1db985b6ba35554f78e60308ea0278e
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
202b103https://github.com/lumenstech/samplot/commit/202b1038e1db985b6ba35554f78e60308ea0278e
https://github.com/lumenstech/samplot/tree/202b1038e1db985b6ba35554f78e60308ea0278e
simplify curr_max_insert_size updatehttps://github.com/lumenstech/samplot/commit/575dc9fcdcdb859c7ec52147fc3aa0fc7aff2d03
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
575dc9fhttps://github.com/lumenstech/samplot/commit/575dc9fcdcdb859c7ec52147fc3aa0fc7aff2d03
https://github.com/lumenstech/samplot/tree/575dc9fcdcdb859c7ec52147fc3aa0fc7aff2d03
Enable --jitter for long readshttps://github.com/lumenstech/samplot/commit/ee99ec0c50e2a1c48ee523bd821a3d7a9ad49b16
https://github.com/pontushojer
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ee99ec0https://github.com/lumenstech/samplot/commit/ee99ec0c50e2a1c48ee523bd821a3d7a9ad49b16
https://github.com/lumenstech/samplot/tree/ee99ec0c50e2a1c48ee523bd821a3d7a9ad49b16
fix Missing legend (?) #171. Only include legends for read types that appear in the plot.https://github.com/lumenstech/samplot/commit/fa357bd975ca4725043caafbf578b8b571faf0a5
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
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https://github.com/lumenstech/samplot/tree/fa357bd975ca4725043caafbf578b8b571faf0a5
fix Missing legend (?) #171. Only include legends for read types that appear in the plot.https://github.com/lumenstech/samplot/commit/0bed14cf7aa8ee30859058a88d1bfa78d187caa3
https://github.com/pontushojer
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0bed14chttps://github.com/lumenstech/samplot/commit/0bed14cf7aa8ee30859058a88d1bfa78d187caa3
https://github.com/lumenstech/samplot/tree/0bed14cf7aa8ee30859058a88d1bfa78d187caa3
speed up read coverage collectionhttps://github.com/lumenstech/samplot/commit/a5a4933a358b895d593246f928ddd1f0660c7a30
https://github.com/pontushojer
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https://github.com/lumenstech/samplot/tree/a5a4933a358b895d593246f928ddd1f0660c7a30
add info about how many variants are filtered out.https://github.com/lumenstech/samplot/commit/ceb48c62571accef0ef0bec77b0002e55d4de7f9
https://github.com/pontushojer
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https://github.com/lumenstech/samplot/tree/ceb48c62571accef0ef0bec77b0002e55d4de7f9
fix string formattinghttps://github.com/lumenstech/samplot/commit/80b4f2f2728df3109d47952d7964f11b2a31226a
https://github.com/pontushojer
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80b4f2fhttps://github.com/lumenstech/samplot/commit/80b4f2f2728df3109d47952d7964f11b2a31226a
https://github.com/lumenstech/samplot/tree/80b4f2f2728df3109d47952d7964f11b2a31226a
Exit if no samples in VCF match sample in BAMs or those specified using `--sample_ids`.https://github.com/lumenstech/samplot/commit/12aad6f1143cea338191baacf9a51253f7747d96
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
12aad6fhttps://github.com/lumenstech/samplot/commit/12aad6f1143cea338191baacf9a51253f7747d96
https://github.com/lumenstech/samplot/tree/12aad6f1143cea338191baacf9a51253f7747d96
Merge branch 'master' of https://github.com/pontushojer/samplothttps://github.com/lumenstech/samplot/commit/f03050860a21c71e39d512d6e7068dbc87b8e117
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
f030508https://github.com/lumenstech/samplot/commit/f03050860a21c71e39d512d6e7068dbc87b8e117
https://github.com/lumenstech/samplot/tree/f03050860a21c71e39d512d6e7068dbc87b8e117
use logger for messageshttps://github.com/lumenstech/samplot/commit/4a5505fc39fb0503b7293f7f8da3a6648ce90d4e
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
4a5505fhttps://github.com/lumenstech/samplot/commit/4a5505fc39fb0503b7293f7f8da3a6648ce90d4e
https://github.com/lumenstech/samplot/tree/4a5505fc39fb0503b7293f7f8da3a6648ce90d4e
Merge pull request #169 from pontushojer/missing-img-errorhttps://github.com/lumenstech/samplot/commit/70cad157e7764c59a6149538305dcccaea8e11b9
https://github.com/mchowdh200
mchowdh200https://github.com/lumenstech/samplot/commits?author=mchowdh200
70cad15https://github.com/lumenstech/samplot/commit/70cad157e7764c59a6149538305dcccaea8e11b9
https://github.com/lumenstech/samplot/tree/70cad157e7764c59a6149538305dcccaea8e11b9
Show a popup error when an image is missinghttps://github.com/lumenstech/samplot/commit/e2180f07c35b5356612bc3790e7d39d9f3135a41
https://github.com/pontushojer
pontushojerhttps://github.com/lumenstech/samplot/commits?author=pontushojer
e2180f0https://github.com/lumenstech/samplot/commit/e2180f07c35b5356612bc3790e7d39d9f3135a41
https://github.com/lumenstech/samplot/tree/e2180f07c35b5356612bc3790e7d39d9f3135a41
fix tests and chr prefix strip (#168)https://github.com/lumenstech/samplot/commit/16560c18bfaf102933c4a7b89e3b28b9230b41d5
https://github.com/jbelyeu
jbelyeuhttps://github.com/lumenstech/samplot/commits?author=jbelyeu
16560c1https://github.com/lumenstech/samplot/commit/16560c18bfaf102933c4a7b89e3b28b9230b41d5
https://github.com/lumenstech/samplot/tree/16560c18bfaf102933c4a7b89e3b28b9230b41d5
Merge pull request #157 from pontushojer/names-missinghttps://github.com/lumenstech/samplot/commit/f3968cf7f0412afa156018e747d6d870d718503f
https://github.com/ryanlayer
ryanlayerhttps://github.com/lumenstech/samplot/commits?author=ryanlayer
f3968cfhttps://github.com/lumenstech/samplot/commit/f3968cf7f0412afa156018e747d6d870d718503f
https://github.com/lumenstech/samplot/tree/f3968cf7f0412afa156018e747d6d870d718503f
Nexthttps://github.com/lumenstech/samplot/commits?after=2929e4a90e5470dc1cb219667606c458b7087265+34
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