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Author SHA1 Message Date
dchakro
949ee59554 replace a shade of blue 2023-08-09 16:27:03 -07:00
dchakro
c52773360d try a different palette 
Pink color conflicts
 2023-08-09 15:03:08 -07:00
dchakro
1d6789928e Add my GNE color palette 2023-08-04 14:34:18 -07:00
dchakro
bd135563a9 hotfix: include the upper limit in next condition 2023-07-28 17:11:00 -07:00
dchakro
340dc08c36 hotfix: sample the color vector properly 2023-07-27 13:38:21 -07:00
dchakro
79a0f8f9e9 Hotfix: return the palette 2023-07-27 11:27:06 -07:00
dchakro
6830c78d55 function to generate palette for categorical data 2023-07-27 11:21:44 -07:00
dchakro
709628702b add code to invoke gptstudio API 2023-06-22 08:28:28 -07:00
dchakro
d1789fa684 gitignore 2023-05-31 09:56:56 -07:00
dchakro
584ae98360 updates 2023-05-31 09:51:31 -07:00
dchakro
79c0931dc5 fix position of cursor 2022-11-17 23:29:43 +02:00
dchakro
77a3494e49 Merge branch 'master' of github.com:dchakro/shared_Rscripts 
# Conflicts:
#	r.snippets.txt
 2022-11-17 23:29:04 +02:00
dchakro
80bac34890 add snippet to write table 2022-11-17 23:22:19 +02:00
dchakro
56329ecab0 app tab markers 2022-10-17 12:22:51 +03:00
dchakro
7a9267f91a unmelt a table 2022-10-17 11:57:28 +03:00
dchakro
e3395714d1 add quotes around string 2022-10-11 11:14:15 +03:00
dchakro
952de9ff86 fix typos 2022-10-11 11:11:36 +03:00
dchakro
9f17821eb0 updates 2022-10-11 11:07:59 +03:00
dchakro
8a2f625bf4 rename to txt as it is easier to edit in text editor 2022-07-08 15:07:45 +03:00
dchakro
eaecaf95f1 improve snippet names 2022-07-06 22:39:27 +03:00
dchakro
dcbc8f4d82 fixes 2022-07-06 12:36:24 +03:00
dchakro
502cd455a9 add several snippets 2022-07-06 12:36:18 +03:00
dchakro
da63aaa491 add r snippets 2022-07-06 08:59:52 +03:00
dchakro
d66be42688 fix column name 2021-10-22 10:00:58 +03:00
dchakro
9984c87c8b add function to parse_IUPAC_cDNA_change 2021-10-22 09:17:23 +03:00
Deepankar Chakroborty
e7ec0be360
Removing uncommented call at the end 2021-08-11 15:54:46 +03:00
dchakro
d91655c10a add instructions 2021-05-06 11:59:13 +03:00
dchakro
342a0019d9 Add PCR formula 2021-05-06 11:50:57 +03:00
dchakro
8f44640c52 Annovar functions 2020-12-16 19:45:17 +02:00
dchakro
03836a5c29 Add website URL 2020-12-16 19:38:29 +02:00
dchakro
db75cd3575 roundup 
Function to round up integer to nearest nth place, e.g. 100th, 10th, 5th.
 2020-12-13 11:29:04 +02:00
dchakro
2752987963 add credits 2020-10-22 08:26:21 +03:00
dchakro
79a312ec12 Add Mutated Residue Finder 2020-10-22 07:46:04 +03:00
dchakro
4296cebfc0 Move summarySE.R from gitlab.utu.fi MTT calc 2020-08-25 14:32:05 +03:00
dchakro
686cbd29bb Remap dependency URL to github 2020-08-25 07:52:35 +03:00
dchakro
5fc69023a4 Update URLs 2020-08-25 07:44:54 +03:00
Deepankar Chakroborty
d4465971e0 Add CT_GA_count.R 
commit ec4f4915ebf6dfda264a5b58c0e180a47e948b99
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Fri Jul 31 13:23:36 2020 +0300

    Removed testing code

commit c1fddc713c1d18bd4272b2c455425931681dafe1
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Fri Jul 31 13:23:14 2020 +0300

    Fixed subsetting to make it work

commit a64df5c0d15cce8ce2ad78a019cafc9aa17b5ff0
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Fri Jul 31 13:16:28 2020 +0300

    add CT_GA_count.R

commit fe050d47c2dc9e61a13d4a362abf56dabfbecbd7
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Fri Jul 31 12:57:11 2020 +0300

    Include usage instruction inside function body

    Include usage instruction inside function body, so on typing just the function name to display the R code, the instructions will appear.
    Also stated things clearly in the T&C

commit fedbca4a7aa8fb436702accdf1f9b5ec7f066d60
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:50:20 2020 +0300

    Updates

    1. Improve readability
    2. Manage differing lengths of breaks and labels.

commit fb32fb9173c66c8862adb0ad41d82db9d128777b
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:43:20 2020 +0300

    skip.steps works as expected

    skip.steps = 1, now skips 1 observation.

commit 00a8bbcf04731c010e0a5989a805274609560188
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:32:16 2020 +0300

    add script to calculate breaks for axes in ggplot2

    calculates breaks and labels for axes in ggplot2 with user defined gaps
 2020-07-31 13:24:28 +03:00
Deepankar Chakroborty
52554283f1 Squashed commit of the following: 
commit fe050d47c2dc9e61a13d4a362abf56dabfbecbd7
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Fri Jul 31 12:57:11 2020 +0300

    Include usage instruction inside function body

    Include usage instruction inside function body, so on typing just the function name to display the R code, the instructions will appear.
    Also stated things clearly in the T&C

commit fedbca4a7aa8fb436702accdf1f9b5ec7f066d60
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:50:20 2020 +0300

    Updates

    1. Improve readability
    2. Manage differing lengths of breaks and labels.

commit fb32fb9173c66c8862adb0ad41d82db9d128777b
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:43:20 2020 +0300

    skip.steps works as expected

    skip.steps = 1, now skips 1 observation.

commit 00a8bbcf04731c010e0a5989a805274609560188
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:32:16 2020 +0300

    add script to calculate breaks for axes in ggplot2

    calculates breaks and labels for axes in ggplot2 with user defined gaps
 2020-07-31 12:58:00 +03:00
Deepankar Chakroborty
f9f647c131 Squashed commit of the following: 
commit fedbca4a7aa8fb436702accdf1f9b5ec7f066d60
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:50:20 2020 +0300

    Updates

    1. Improve readability
    2. Manage differing lengths of breaks and labels.

commit fb32fb9173c66c8862adb0ad41d82db9d128777b
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:43:20 2020 +0300

    skip.steps works as expected

    skip.steps = 1, now skips 1 observation.

commit 00a8bbcf04731c010e0a5989a805274609560188
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Thu Jul 30 12:32:16 2020 +0300

    add script to calculate breaks for axes in ggplot2

    calculates breaks and labels for axes in ggplot2 with user defined gaps
 2020-07-30 12:52:41 +03:00
Deepankar Chakroborty
36b51322d5 Merge branch 'develop' 2020-07-30 10:53:35 +03:00
Deepankar Chakroborty
21c9b5fd98 Better readability of code 2020-07-30 10:50:16 +03:00
Deepankar Chakroborty
17c62d360a point refseq RDS URL to master 2020-07-29 15:02:33 +03:00
Deepankar Chakroborty
a1a6dd9dcf Updates 
- add IsolateCanonicalVariant.R
- remove variables used to check and install dependencies
 2020-07-29 15:00:48 +03:00
Deepankar Chakroborty
b35647d0df Merge branch 'master' into develop 2020-07-29 14:44:19 +03:00
Deepankar Chakroborty
4c3b85200c Squashed commit of the following: 
commit 631eef6e8b
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Wed Jul 29 14:41:00 2020 +0300

    Switch to stringi to improve performance.

commit 99a6589b9b
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Wed Jul 29 14:39:44 2020 +0300

    Include MutSiteFind.R and improved installing dependencies

    unparalogMutations checks & installs dependencies only when it is sourced, and not everytime the function was called (as previously).

commit a044ac9f09
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Wed Jul 29 14:19:03 2020 +0300

    updated 20200714

commit cd79464c4e
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Wed Jul 29 13:12:47 2020 +0300

    Squashed commit of the following:

    commit 23f5db8f0f
    Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
    Date:   Wed Jul 29 13:12:26 2020 +0300

        Changed to Apache License 2.0

    commit 21ad1ee706
    Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
    Date:   Wed Jul 29 13:12:05 2020 +0300

        Update info section
 2020-07-29 14:43:39 +03:00
Deepankar Chakroborty
631eef6e8b Switch to stringi to improve performance. 2020-07-29 14:41:00 +03:00
Deepankar Chakroborty
99a6589b9b Include MutSiteFind.R and improved installing dependencies 
unparalogMutations checks & installs dependencies only when it is sourced, and not everytime the function was called (as previously).
 2020-07-29 14:39:44 +03:00
Deepankar Chakroborty
a044ac9f09 updated 20200714 2020-07-29 14:19:03 +03:00
Deepankar Chakroborty
cd79464c4e Squashed commit of the following: 
commit 23f5db8f0f
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Wed Jul 29 13:12:26 2020 +0300

    Changed to Apache License 2.0

commit 21ad1ee706
Author: Deepankar Chakroborty <deepankar.chakroborty@utu.fi>
Date:   Wed Jul 29 13:12:05 2020 +0300

    Update info section
 2020-07-29 13:12:47 +03:00
Deepankar Chakroborty
23f5db8f0f Changed to Apache License 2.0 2020-07-29 13:12:26 +03:00