Kaitao Lai
Kaitao Lai
Regarding the differential heat tree, how I can print the taxon list table for the differential heat tree after Wilcoxon rank Sum test? The taxon list should include the more...
I can see you have done alpha-diversity assessment by using Inverse Simpson index, how could I assess the alpha-diversity by richness using Chao1 and ACE?
For the opposite of differential heat tree, could we print the heat tree with common species for both groups?
I tried to run alpha diversity analysis from https://grunwaldlab.github.io/metacoder_documentation/workshop--07--diversity_stats.html, and test below codes: library(vegan) sample_data$alpha rlang::last_trace() Corrupt `grouped_df` using old (< 0.8.0) format. ℹ Strip off old grouping with `ungroup()`....
How to increase the text size for lineage names in heat_tree? The text is too small to recognize.
When I run filter_taxa, I can see the error: Error in simplify(output) : could not find function "simplify" How I can resolve this issue?
When I try to run this command: correct-cnv -H patient_hg38_contact_map.mcool::resolutions/100000 \ --cnv-file patient_hg38_contact_map_100kb.CNV-seg.bedGraph --nproc 4 -f It return such error: Traceback (most recent call last): File "/home/user1/var/opt/mambaforge/envs/neoloop/lib/python3.10/site-packages/pandas/core/indexes/base.py", line 3791, in...
Hi, When I run "../tools/bin/bpipe run -p EXOME_TARGET="SCA8_region.bed" ../pipelines/STRetch_exome_pipeline.groovy *.fastq.gz" for testing, it return such errors: File "/opt/STRetch/tools/miniconda/envs/STR/lib/python3.7/site-packages/Bio/Alphabet/__init__.py", line 21, in "Bio.Alphabet has been removed from Biopython. In many cases,...