locigenesis

Author	SHA1	Message	Date
coolneng	f81e4af94e	Amplify VDJ sequences to simplify parsing	2021-03-29 22:57:36 +02:00
coolneng	576597cb04	Remove redundant sequencing runs argument	2021-03-29 20:40:01 +02:00
coolneng	13f453718d	Implement HVR sequence alignment	2021-03-27 09:39:59 +01:00
coolneng	3a10380d8c	Construct a dataframe containing the HVR region	2021-03-25 21:53:49 +01:00
coolneng	8f5b9ee698	Parse curesim and VDJ sequences from files	2021-03-23 20:54:31 +01:00
coolneng	66b39485a9	Save vdj alignment sequences to a CSV	2021-03-23 19:35:10 +01:00
coolneng	97b8914cd5	Add literate programming notebook	2021-03-23 18:24:12 +01:00
coolneng	bc666a37c7	Delete CuReSim log file after execution	2021-03-11 21:28:58 +01:00
coolneng	d5bf8f3b72	Remove redundant casting	2021-03-11 21:28:00 +01:00
coolneng	762791829a	Save v_call and j_call to a text file	2021-03-11 21:03:16 +01:00
coolneng	7b15df7614	Simplify repertoire generation	2021-03-10 12:34:20 +01:00
coolneng	f4a001f821	Change CuReSim output file extension to FASTQ	2021-03-10 12:33:25 +01:00
coolneng	d2e45bc00f	Change output format to FASTA	2021-03-02 20:08:14 +01:00
coolneng	deb1066982	Set CuReSim read size to 350 bases	2021-03-02 20:07:05 +01:00
coolneng	edc4a72425	Update gitignore	2021-02-28 02:24:23 +01:00
coolneng	42aadb1e28	Add sequencing runs CLI argument	2021-02-28 02:23:58 +01:00
coolneng	ae5014fd74	Remove a_chain generation	2021-02-28 02:23:28 +01:00
coolneng	34722f3ebf	Add gitignore	2021-02-26 03:11:34 +01:00
coolneng	b51706d0c0	Create a script that executes the pipeline	2021-02-26 03:11:25 +01:00
coolneng	53dda36c66	Export the data to FASTQ files	2021-02-26 02:20:11 +01:00
coolneng	b035c496f7	Filter the relevant columns from immuneSIM output	2021-02-26 02:19:40 +01:00
coolneng	2cece5e53e	Set number of sequences via a CLI argument	2021-02-25 20:02:11 +01:00
coolneng	010849d4c9	Generate both alfa and beta chains	2021-02-25 20:00:35 +01:00
coolneng	f63fabac4f	Add development tools as project dependencies	2021-02-22 21:40:17 +01:00
coolneng	5c37fad320	Add data directories	2021-02-22 00:59:32 +01:00
coolneng	6cb20a7b1e	Create a repertoire simulation prototype	2021-02-21 20:59:39 +01:00
coolneng	04936c47cc	Initial commit	2021-02-18 00:01:17 +01:00

27 Commits