Tom

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• Joined on 2026-08-08

Repositories

4

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Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-06 20:14:59 +02:00

5e95ea9476 Changed trap download structure

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-04 11:41:23 +02:00

c734715d3c Re-added trap bascell

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-04 11:37:33 +02:00

673005ceba added rocm path

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-04 10:58:05 +02:00

58974c6af1 Removed trap dataset read limit

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-04 10:55:50 +02:00

10b0a29d2b Corrected trap dataset handling

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-03 16:52:35 +02:00

f688e173e7 Ensured trap donwload runs solo

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-03 16:51:52 +02:00

097ecab270 updated curl sybtax for trap data

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-03 16:35:42 +02:00

0fdb5fa07b added limit for number of trap reads to process

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-03 16:25:15 +02:00

88406e584e Updated config and resource requirements

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-03 16:17:44 +02:00

97d9ddb2c5 Updated custom models to current commit

Tom pushed to main at Tom/eDNA_Stream_E01_custom_models 2026-10-03 16:17:09 +02:00

3e8ccdbdad Made more compatible with experimental conditions

Tom pushed to main at Tom/eDNA_Stream_E01 2026-10-03 16:16:57 +02:00

f0cd594148 Added custom models as submodule, added pipleline for trap species handling (up to alignment). Initial progress on custom model rules

Tom pushed to main at Tom/eDNA_Stream_E01_custom_models 2026-09-29 09:56:00 +02:00

96ae5d78ba Added --out optional flag for build subcommand to make usage in snakemake cleaner

88e98effad Initial release: E1 genus probe package moved out of the E01 workflow

Tom created branch main in Tom/eDNA_Stream_E01_custom_models 2026-09-29 09:56:00 +02:00

Tom created repository Tom/eDNA_Stream_E01_custom_models 2026-09-29 09:55:38 +02:00

Tom pushed to main at Tom/eDNA_Stream_E01 2026-09-19 10:19:27 +02:00

3b93ceaf6e Fixed compression to happen at concatenation to save cpu time -> per-pod5-files are deleted anyways, so storage is not a concern.

Tom pushed to main at Tom/eDNA_Stream_E01 2026-09-19 09:49:51 +02:00

15c56b9ffb fixed compression of basecalled data, added reference alignment step

Tom pushed to main at Tom/eDNA_Stream_E01 2026-09-18 10:10:04 +02:00

9747494090 fixed hac6 batchsize file path in config

Tom pushed to main at Tom/eDNA_Stream_E01 2026-09-18 10:06:06 +02:00

2688d136e3 added benchmarks file to config

Tom pushed to main at Tom/eDNA_Stream_E01 2026-09-18 10:05:17 +02:00

0551f008e3 added RTX4060Ti 16GB benchmarks file for HAC v6.0.0