kinfin

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plot_cluster_size and generate_network .py errors

3

Hi. I tried both plotting scripts and both gave errors: ./plot_cluster_size_distribution.py -i ../out1.kinfin_results/cluster_counts_by_taxon.txt -o clustersizedist_out1 -c tab20 [+] Start ... [+] Plotting "loglogpowerlaw" ... Traceback (most recent call last): File...

aebaci

plot_cluster_size_distribution.py

1

Hi André, I had the same problem with this script `[+] Start ... [+] Plotting "loglogpowerlaw" ... Traceback (most recent call last): File "/home1/zyx/my_kinfin/kinfin-1.0.3/scripts/plot_cluster_size_distribution.py", line 237, in dataObj.plot_cluster_sizes('loglogpowerlaw') File "/home1/zyx/my_kinfin/kinfin-1.0.3/scripts/plot_cluster_size_distribution.py",...

Yixiangzhang1996

Need to explicitly import stats from scipy

1

Hi all, When attempting to run Kinfin as distributed, I get the error "AttributeError: 'module' object has no attribute 'stats'". This issue can be resolved by explicitly importing the stats...

mbarkdull

meet problem on "no attribute '__getitem__'"

1

Hi there, I am trying to analyze my orthofinder output data with kinfin, I have encountered the following problem: ``` [STATUS] - Parsing /home/bmb/pecanGenome/orthofinder/kinfin/Orthogroups.txt ... this may take a while...

JohnnyChen1113

generate_network.py error

2

Hi, I'm using the follow command but it didn't working :$ /home/user/programs/kinfin/scripts/generate_network.py -m -m kinfin_results/TAXON/TAXON.cluster_summary.txt -c config.txt [+] Parsing SpeciesClassification file: config.simple.txt ... [+] Parsing kinfin_results/TAXON/TAXON.cluster_summary.txt ... [+] Max edge...

agcmartins

Hello. I extracted Orthogroups using OrthoFinder. I wanted to classify only clusters that have more than 70% Single-Copy genes among the taxa, so I tried using KinFin. However, when I...

PleniumJS