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Can't view a transcript in Trancript View (sleuth_live) using TPM as unit #113

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apcamargo opened this issue May 31, 2017 · 4 comments
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Can't view a transcript in Trancript View (sleuth_live) using TPM as unit #113

apcamargo opened this issue May 31, 2017 · 4 comments

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@apcamargo
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apcamargo commented May 31, 2017 •
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I'm using the latest devel.

model <- sleuth_prep(df, ~ sex + tissue, min_reads=4, min_prop=0.47,
                            read_bootstrap_tpm = TRUE, extra_bootstrap_summary = TRUE)
model <- sleuth_fit(model)
model <- sleuth_wt(model, 'sexmale')

screenshot from 2017-05-31 16-23-30
screenshot from 2017-05-31 16-23-24
@apcamargo apcamargo changed the title Can't view a transcript in Trancript View using TPM as unit Can't view a transcript in Trancript View (sleuth_live) using TPM as unit Jun 1, 2017
@leiendeckerlu
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same here for me in the 'gene view' as long as I'm looking at the est_counts, everything is fine but as soon as I switch to tpm I get the "couldn't find target_id ..." error. I'm using the latest version from the devel branch.

@warrenmcg warrenmcg mentioned this issue Jun 2, 2017
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pimentel added a commit that referenced this issue Jun 2, 2017
@pimentel
Merge pull request #116 from warrenmcg/issue113
cbbd938 
address #113 - patch bug where TPM bootstrap summary target_ids are moved
@warrenmcg
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Try using the latest devel branch of sleuth, and see if the new patches solve this problem.

@apcamargo
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I've tested it earlier today, it's working fine. Thank you!

@pimentel pimentel closed this as completed Jun 5, 2017
@leiendeckerlu
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Yep, indeed this issue is resolved! Thanks!

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4 participants
@pimentel @warrenmcg @apcamargo @leiendeckerlu