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2021-04-24
merge_edges.py: use the most recent 365 edge files (to handle out-of-memory p...
Hui Lan
2021-02-19
QUICKSTART.rst: explain option EXISTING_TARGET_TF_PAIRS in parameter_for_net....
Hui Lan
2021-02-18
make_target_tf.py and param4net.py: add an option EXISTING_TARGET_TF_PAIRS in...
Hui Lan
2021-02-18
make_target_tf.py: format of target_tf.txt.
Hui Lan
2021-02-16
make_target_tf_agris.py: no longer need to check ID starts with AT, as it has...
Hui Lan
2021-02-16
make_target_tf_agris.py: refactor code, and include tf-target pairs from the ...
Hui Lan
2021-02-10
test.py: delete it as it is for temporary testing purpose only.
Hui Lan
2021-02-10
test.py: make it work.
Hui Lan
2021-02-10
download_and_map.py: fix name d not defined error.
Hui Lan
2021-02-10
download_and_map.py: remove function read_ena_data_info() as it is no longer ...
Hui Lan
2021-02-10
download_and_map.py: simplify function read_ena_data_info_json such that it i...
Hui Lan
2021-02-10
download_and_map.py: adpat this script to use the latest rnaseq_info_database...
Hui Lan
2021-02-10
parse_ena_xml.py: adapt the script to use the latest meta data.
Hui Lan
2021-02-09
update_network_by_force.py: move the position of the 'update done' log.
Hui Lan
2021-02-09
overlap.py: while.
Hui Lan
2021-02-09
update_network_by_force.py: compute overlap with AtRegNet.20210208.csv.
Hui Lan
2021-02-09
overlap.py: compare predicted edges with gold standard (osu AtRegNet.csv) edges.
Hui Lan
2021-02-09
update_network.py: code review.
Hui Lan
2021-02-06
brain.documentation/QUICKSTART.rst: update version info and change log.
Hui Lan
2021-02-06
brain.documentation/QUICKSTART.rst: a Ubuntu server.
Hui Lan
2021-02-06
brain.documentation/QUICKSTART.rst: specify the running environment.
Hui Lan
2021-02-06
update .gitignore such that it could track QUICKSTART.rst in brain.documentat...
Hui Lan
2021-02-06
update .gitignore such that it could track QUICKSTART.rst in brain.documentat...
Hui Lan
2021-02-06
Move edge files in edge_pool to /disk1/edge_pool to save space in the workspace.
Hui Lan
2020-12-13
make_parameter_rnaseq.py: if a line in quant.sf is not complete, ignore this ...
Hui Lan
2020-10-27
buildRmatrix.py: use a string to store the max expression level from isoforms...
Hui Lan
2020-10-27
buildRmatrix.py: use a string to store the max expression level from isoforms.
Hui Lan
2020-10-21
update_network.py: make TPM.txt.
Hui Lan
2020-10-10
buildRmatrix.py: use string instead of float to store TPM values. This scrip...
Hui Lan
2020-08-27
buildRmatrix.py: get max value eariler.
Hui Lan
2020-08-27
buildRmatrix.py: remove a redundant line.
Hui Lan
2020-08-16
html_network.py: make URL for edge information such as AT3G09600_AT1G49720_0....
Hui Lan
2020-08-15
html_network.py: make URL for edge information such as AT3G09600_AT1G49720_0....
Hui Lan
2020-08-14
start_webapp.py and util_networkx.py: remove them (they are in /var/www/brain...
Hui Lan
2020-08-14
html_network.py: make URL for edge information such as AT3G09600_AT1G49720_0....
Hui Lan
2020-05-05
update_netowrk_by_force.py: curl http://118.25.96.118/brain/before should be ...
Hui Lan
2020-05-05
update_netowrk_by_force.py: check why merge_edges.py does not fully work.
Hui Lan
2020-05-04
merge_edges.py: Remove 'May take a while.' Actually, after insertion speed i...
Hui Lan
2020-05-04
merge_edges.py: Remove colon after [merge_edges.py].
Hui Lan
2020-05-04
merge_edges.py: rename make_new_edge2. Remove 2.
Hui Lan
2020-05-04
merge_edges.py: make sqlite insert really fast. Commit in the end instead of...
Hui Lan
2020-05-04
merge_edges.py: string does not have isnumeric method.
Hui Lan
2020-05-03
download_and_map.py: when download_log.txt contains blank lines, this script ...
Hui Lan
2020-05-03
configure.py: fewer daily downloads
Hui Lan
2020-05-02
download_and_map.py: lower the requirement of available disk space to make do...
Hui Lan
2020-04-04
Modified .gitignore
Hui Lan
2020-04-04
Modified .gitignore
Hui Lan
2020-03-27
update_network_by_force.py: the number of %s should be the same as the number...
Hui Lan
2020-03-27
html_network.py: string like 'F3'H' will cause syntax error in JavaScript. js...
Hui Lan
2020-03-27
html_network.py: string like 'F3'H' will cause syntax error in JavaScript.
Hui Lan
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