Ecosyste.ms: Issues

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GitHub / WGLab/LIQA issues and pull requests

#46 - error in liqa -diff

Issue - State: closed - Opened by Saravanakumarselvaraj12 2 months ago - 2 comments

#45 - Error while runing Liqa quantification

Issue - State: closed - Opened by EglantineMB 4 months ago - 1 comment

#44 - about gcmr

Issue - State: closed - Opened by border-info-nt 8 months ago - 7 comments

#43 - Understanding novel mode outputs

Issue - State: closed - Opened by spvensko 9 months ago - 2 comments

#42 - Issue with novel mode output header

Issue - State: closed - Opened by spvensko 9 months ago - 1 comment

#41 - how to calculate TPM

Issue - State: closed - Opened by tebioinformatics 10 months ago - 1 comment

#40 - Unable to see refgene output

Issue - State: closed - Opened by sparthib 12 months ago - 1 comment

#39 - Does Liqa -task diff perform FDR correction?

Issue - State: closed - Opened by benpiticaru about 1 year ago - 1 comment

#38 - Issue with DAS estimation and output

Issue - State: closed - Opened by JesusMHU about 1 year ago - 2 comments

#37 - Installing LIQA

Issue - State: closed - Opened by dvirdi01 over 1 year ago - 2 comments

#36 - Out of memory problem

Issue - State: closed - Opened by sonyuna90 over 1 year ago - 1 comment

#35 - sh: Rscript: command not found when I tried with -task diff

Issue - State: closed - Opened by sonyuna90 over 1 year ago

#34 - Novel isoform detection

Issue - State: closed - Opened by AlinaO90 over 1 year ago - 2 comments

#33 - Invalid literal for int()

Issue - State: closed - Opened by lkmack21 over 1 year ago

#31 - version

Issue - State: closed - Opened by whatabear almost 2 years ago - 1 comment

#30 - Should not use gene name as key

Issue - State: closed - Opened by baraaorabi almost 2 years ago

#29 - Added arg to set min iso per gene

Pull Request - State: closed - Opened by baraaorabi almost 2 years ago

#28 - Added multiprocessing to quantify.py

Pull Request - State: closed - Opened by baraaorabi almost 2 years ago

#27 - reproduce figure 6 in your manuscript

Issue - State: closed - Opened by HaojiaWu about 2 years ago - 5 comments

#26 - remove -F 2308 part in reads filtering

Pull Request - State: closed - Opened by MingyiXia9717 over 2 years ago

#25 - what is ReadPerGene_corrected?

Issue - State: closed - Opened by zhanglab2008 over 2 years ago - 1 comment

#24 - fastq file to bam file

Issue - State: closed - Opened by zhanglab2008 over 2 years ago - 5 comments

#23 - LIQA quantify crashes with newest version of lifelines and -f_weight 0

Issue - State: closed - Opened by jpfry327 over 2 years ago - 1 comment

#22 - Output issue

Issue - State: closed - Opened by FarmOmics over 2 years ago - 3 comments

#21 - Estimation of read length survival function

Issue - State: closed - Opened by rob-p over 2 years ago - 1 comment

#20 - Problem in finding GCMR packages

Issue - State: closed - Opened by shafijcsmr over 2 years ago - 3 comments

#19 - Detecting Alternative Splicing events Error.

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

#18 - DAS Error.

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

#17 - Execution halted: detecting differential isoform

Issue - State: closed - Opened by allapadma almost 3 years ago - 1 comment

#16 - Sorted and indexed bam file error

Issue - State: closed - Opened by allapadma almost 3 years ago

#15 - single isoform genes are excluded

Issue - State: closed - Opened by nhartwic about 3 years ago - 10 comments

#14 - "liqa -task refgene" but there are no result

Issue - State: closed - Opened by JD12138 about 3 years ago - 5 comments

#13 - Output file explanation

Issue - State: closed - Opened by gmoneyomics about 3 years ago - 1 comment

#12 - option for parallel processing

Issue - State: closed - Opened by Akanksha2511 about 3 years ago - 3 comments

#11 - output explanation

Issue - State: closed - Opened by Akanksha2511 over 3 years ago - 5 comments

#10 - could not find bam file

Issue - State: closed - Opened by Cristinex over 3 years ago - 5 comments

#9 - installation problem

Issue - State: closed - Opened by Cristinex over 3 years ago

#8 - ValueError: invalid contig while quantifying isoform expression

Issue - State: closed - Opened by saifashraf over 3 years ago - 5 comments

#7 - assign reads to transcript

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

#6 - ValueError: invalid coordinates: start (10589) > stop (9435)

Issue - State: closed - Opened by hmutpw over 3 years ago - 4 comments

#5 - R error when detecting DAS genes

Issue - State: closed - Opened by asethi-1 over 3 years ago - 32 comments

#4 - Quantify error

Issue - State: closed - Opened by JesseBNL almost 4 years ago - 3 comments

#3 - High abundance but no reads

Issue - State: closed - Opened by mei-du almost 4 years ago - 5 comments

#2 - Novel isoforms

Issue - State: closed - Opened by mei-du almost 4 years ago - 1 comment

#1 - Error in quantifying isoform expression

Issue - State: closed - Opened by maxh190 about 4 years ago - 8 comments