pachterlab sleuth issues

pachterlab / sleuth

Differential analysis of RNA-Seq

http://pachterlab.github.io/sleuth

GNU General Public License v3.0

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issues

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Conceptual Question Relating to Shrinkage

#235 brycealex opened 5 years ago
0
Sleuth_live splitting Ensemble gene ID's into columns...

#234 zxc098 opened 5 years ago
6
plot_ma function throws error for wald test results

#233 Rhinogradentia opened 5 years ago
4
Error in bs_mat[, which_ids] : subscript out of bounds

#232 lliaokc opened 5 years ago
0
sleuth_gene_table does not return results as in documentation

#231 hhvu0102 opened 5 years ago
1
plot_volcano: Object 'b' not found

#230 umasstr closed 4 years ago
7
How does the sleuth model operates?

#229 dlata123 closed 5 years ago
1
4 NA values were found during variance shrinkage estimation

#228 cq30 opened 5 years ago
0
Update for Bioconductor version 3.9

#227 sathomas closed 4 years ago
0
Installation instructions incorrect for latest Bioconductor version (3.9)

#226 sathomas closed 4 years ago
0
Issue with sleuth install

#225 Kappy2 closed 5 years ago
12
404 not found for example data in walkthrough

#224 MikeAxtell opened 5 years ago
3
loess uses all computer resources when doing shrinkage

#223 warrenmcg opened 5 years ago
0
which one should I used to calculate logFC?

#222 YichaoOU opened 5 years ago
0
Error messages uninformative when running with gene_mode = FALSE

#221 alexdhill opened 5 years ago
0
argument "target_ids" is missing, with no default

#220 YichaoOU opened 5 years ago
0
sleuth_fit needs more informative error message when there are no replicates

#219 Npbs8691 opened 5 years ago
3
sleuth_prep hangs on "summarizing bootstraps" when num_cores > 1 and gene_mode = TRUE

#218 ajw2329 opened 5 years ago
0
[Issue] Zero targets passed the filter you used. Please double check the filter used.

#217 patrickshox closed 5 years ago
2
sleuth_live error : "test" is not a valid character

#216 fifdick opened 5 years ago
1
`sleuth_gene_table` gives non-sensical results when `gene_mode = TRUE`

#215 warrenmcg opened 5 years ago
0
Miscellaneous bug fixes

#214 warrenmcg closed 4 years ago
1
Speed up sleuth_fit, custom shrinkage function, reconfigure transform API, misc bug fixes

#213 warrenmcg opened 5 years ago
0
typo in ?sleuth_prep

#212 brettvanderwerff opened 5 years ago
0
DGE Kallisto / Sleuth

#211 shahab178 closed 5 years ago
3
Improve obs_to_matrix with data.table

#210 andrewrech opened 5 years ago
6
Shiny App Not allowing to plot bootstraps using ext_gene

#209 tiagobrc opened 5 years ago
6
cluster_transcripts = FALSE still cluster rows in plot_transcript_heatmap

#208 bruvellu opened 5 years ago
0
Order of labels_row in plot_transcript_heatmap

#207 bruvellu opened 5 years ago
1
Error in curl::curl_fetch_memory(url, handle = h) while trying to install sleuth.

#206 debasishbk opened 5 years ago
2
Show %variance captured by each principal component

#205 ArtemSokolov closed 3 years ago
4
subsetting kallisto object using subset_kallisto()

#204 agropyron opened 6 years ago
2
Running sleuth in single run mode

#203 gezmi opened 6 years ago
1
strange error from sleuth_results in gene mode

#202 kmattioli closed 6 years ago
2
subsetting kallisto object using subset_kallisto()

#201 jusu-E404 closed 6 years ago
3
transformation_function not working

#200 dominik-handler closed 6 years ago
6
volcano plot with sleuth results

#199 suyeonwy closed 6 years ago
1
#001: H5Gint.c line 833 in H5G_iterate(): unable to register group #13

#198 antonkulaga closed 6 years ago
1
add support of strings as factors

#197 antonkulaga opened 6 years ago
0
updat walkthrough based on the latest changes

#196 antonkulaga opened 6 years ago
0
Error in sleuth_prep

#195 caberger1 closed 6 years ago
3
scatter plots -> Error in as.data.frame.default

#194 smovahedi opened 6 years ago
8
plot_transcript_heatmap doesn't return plot, returns gtable object

#193 mchimenti opened 6 years ago
3
Emergency patch to fix #190, part 2

#192 warrenmcg closed 4 years ago
0
Emergency patch to fix #190

#191 warrenmcg closed 6 years ago
1
Error in sleuth_live using gene_mode=TRUE

#190 lmigueel closed 4 years ago
8
Add gene-level 'obs_raw' support to 'sleuth_to_matrix'

#189 apcamargo opened 6 years ago
0
Option to output gene-level abundances from sleuth_to_matrix, even when gene_mode = FALSE

#188 apcamargo opened 6 years ago
9
Aggregation by gene not working

#187 tiagobrc closed 6 years ago
2
[Suggestion] Comparisons should be based on the input order of the conditions, not alphabetically

#186 zefrieira opened 6 years ago
4

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