simka

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convert output matrix to triangular format in R

1

greetings, i enjoy using simka but i have a question regarding manipulating the output files. specifically, is there a way to convert the 'mat_abundance_braycurtis.csv' into a triangular lower matrix. i'm...

TonyMane

simple test stuck

1

Hi, The simple test has been stuck for some hours and all files in the the temporary folder merge_synchro/ are empty. Nothing has changed in my folders since 5 hours...

lalalagartija

``` include/hdf5/H5ACpublic.h etc. ``` are installed by hdf5.

yurivict

yurivict

1. It reinstalls ```h5cc``` that is installed by ```hdf5```. 2. It installs an unconventional file ```lib/libhdf5.settings``` that is most likely misplaced or not needed. 3. It installs directories that mimic...

yurivict

Hello! I hope you are well. simka looks like a great tool! How are the samples normalized with the -max-reads 0 flag? I did not see a description of this...

rotheconrad

Greetings, running the test scripts of _simka_ while stabilizing the upcoming Debian 11, the CI team noted that the program hangs under certain circumstances. Further investigations on my end seemed...

emollier

Can't open object can't open my reads

6

Hi there, I built an input file of my reads. It said can't read my reads with the same error when I ran simka. The example tested successfully. Could someone...

FengqingWang0712

run does not finish

1

Hi, I'm running simka on around 1000 samples with a total of 45 billion reads. ``` simka -in simka_input.txt -out results_simka -out-tmp temp_output -simple-dist -max-count 6 -max-merge 18 -nb-cores 112...

palomo11

SimkaMin output file symmetry

2

Dear SimkaMin Dev, I recently stumbled upon your Simkamin tool and tried to use it to compare my 4000 datasets against each other to get information on the similarity of...

hjruscheweyh