Ecosyste.ms: Issues

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GitHub / NBISweden/GUESSmyLT issues and pull requests

#23 - cannot install with conda on Ubuntu 20.04 nor 22.04

Issue - State: open - Opened by julienlag almost 2 years ago - 2 comments

#22 - Samtools version check for sort command fails, tries to use `-f`

Issue - State: closed - Opened by Shellfishgene almost 3 years ago - 2 comments

#21 - Singularity container does not work due to read only filesystem

Issue - State: open - Opened by Shellfishgene almost 3 years ago - 1 comment

#20 - No match found betwwen sequence id from the bam file and the reference file

Issue - State: closed - Opened by papelypluma almost 3 years ago - 10 comments

#19 - Installed BUSCO is detected to be missing

Issue - State: open - Opened by yifangt almost 3 years ago - 3 comments

#18 - hmmsearch Parse failed ...

Issue - State: closed - Opened by papelypluma about 3 years ago - 8 comments

#17 - error

Issue - State: closed - Opened by liaguiro over 3 years ago - 12 comments

#16 - Error. No genes could be found in --annotation

Issue - State: closed - Opened by LehmannN over 4 years ago - 4 comments

#15 - result interpretation

Issue - State: closed - Opened by Homap almost 5 years ago - 3 comments

#14 - Error in bowtie2_index

Issue - State: closed - Opened by Homap almost 5 years ago - 7 comments

#13 - Provide a docker container

Issue - State: closed - Opened by jpfeil almost 5 years ago - 1 comment

#12 - Deal with different samtools version

Issue - State: closed - Opened by Juke34 over 5 years ago

#11 - cannot run with only fastq file

Issue - State: closed - Opened by mistrm82 over 5 years ago - 2 comments

#10 - error with using the GUESSmyLT.py

Issue - State: closed - Opened by mistrm82 over 5 years ago - 5 comments

#9 - providing way to give index of the bam file

Issue - State: open - Opened by Juke34 over 5 years ago
Labels: enhancement

#8 - Provide mean distance between paired reads

Issue - State: open - Opened by Juke34 over 5 years ago

#7 - find a way to call run_BUSCO.py instead of run_busco when needed

Issue - State: closed - Opened by Juke34 over 5 years ago - 1 comment

#6 - adapt the samtools sort command to work with ancient version of bowtie

Issue - State: closed - Opened by Juke34 over 5 years ago - 1 comment

#5 - Optimize BUSCO for transcriptome reference

Issue - State: open - Opened by Juke34 over 5 years ago
Labels: enhancement

#4 - Logging of last step, Inference

Issue - State: open - Opened by Juke34 over 5 years ago
Labels: enhancement

#3 - Improve how reads are selected during the Subsampling

Issue - State: open - Opened by Juke34 over 5 years ago
Labels: enhancement

#2 - Handling external annotation file (gff)

Issue - State: closed - Opened by Juke34 over 5 years ago
Labels: enhancement

#1 - Handling of pre-mapped reads (bam file)

Issue - State: closed - Opened by Juke34 over 5 years ago
Labels: enhancement