matsengrp sumrep issues

matsengrp / sumrep

Summary statistics for repertoires

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Update installation.md

#47 scharch opened 1 year ago
0
Install instructions need to be updated

#46 scharch opened 1 year ago
0
Added HDMD function FactorTransform

#45 ayeletperes closed 2 years ago
0
Using sumrep docker spec with singularity

#44 bcorrie opened 2 years ago
0
Update SummaryStats.R

#43 catsutherland opened 3 years ago
1
Dependencies missing in REDAME

#42 shashidhar22 opened 3 years ago
0
Take two of preliminary packagification steps

#41 javh closed 4 years ago
17
compareRepertoires documentation needs to be updated

#40 scharch closed 5 years ago
2
Convert plotting functions to use plotUnivariateDistributions

#39 BrandenOlson opened 5 years ago
0
Getting indel statistics from IGBlast

#38 BrandenOlson opened 5 years ago
0
Clonal clustering for TCR repertoires

#37 BrandenOlson opened 5 years ago
0
Allow for general file extensions for IgBlast output

#36 BrandenOlson opened 5 years ago
0
Elaborate on IgBlast and ChangeO installation in docs

#35 BrandenOlson opened 5 years ago
1
Compute D gene summaries for TCR delta locus

#34 BrandenOlson closed 5 years ago
0
Error with partis

#33 Pezhvuk closed 5 years ago
3
Allow custom filters in summaries of sequence columns

#32 BrandenOlson opened 5 years ago
0
Check for correct object names in compareRepertoires

#31 BrandenOlson closed 5 years ago
0
Standardize locus input

#30 BrandenOlson opened 5 years ago
1
Output sequence length information for repertoire comparison

#29 BrandenOlson opened 5 years ago
0
Error: `data` must be uniquely named but has duplicate elements

#28 Pezhvuk closed 5 years ago
5
Safer column accessing

#27 BrandenOlson opened 5 years ago
3
Error in rbindlist whilst running getPartisAnnotations

#26 Pezhvuk closed 5 years ago
3
AssignGenes.py is never called on one particular file when getIgBlastAnnotations is called

#25 Pezhvuk opened 5 years ago
0
-locus: invalid choice: 'ig'

#24 Pezhvuk closed 5 years ago
2
partis command not passed to shell. while: Expression Syntax error.

#23 Pezhvuk closed 5 years ago
2
Partis

#22 Pezhvuk closed 5 years ago
4
Nearest_Neighbour error

#21 Pezhvuk closed 5 years ago
11
improve Traceback calls

#20 Pezhvuk opened 5 years ago
2
Getting CDR3s from IGoR

#19 BrandenOlson closed 5 years ago
1
Real-world data sets

#18 williamdlees opened 5 years ago
21
Initial pass at refactoring into a package

#17 javh closed 4 years ago
2
Heavy/beta vs light/alpha chains

#16 BrandenOlson closed 5 years ago
0
documentation - *running* sumrep

#15 scharch closed 5 years ago
1
Amino acid sequences?

#14 matsen closed 5 years ago
3
Definitions of mature and naive sequences

#13 BrandenOlson closed 5 years ago
5
Looser coupling to annotaters and simulators?

#12 williamdlees closed 5 years ago
3
Summary plotting

#11 BrandenOlson closed 5 years ago
2
libgfortran.so.4

#10 Pezhvuk closed 5 years ago
7
try/catch removing tmp file

#9 krdav closed 6 years ago
0
Proportion of out-of-frame sequences

#8 BrandenOlson closed 5 years ago
8
Automatic divergence averaging

#7 BrandenOlson closed 5 years ago
2
Comparing Substitution and Targeting Models

#6 BrandenOlson closed 5 years ago
15
Physicochemical features of CDRs

#5 BrandenOlson closed 5 years ago
4
Distances between mutations on BCRs

#4 matsen closed 5 years ago
1
Joint/marginal VDJ usage distributions

#3 BrandenOlson closed 5 years ago
0
Levenstein distance calculation

#2 matsen closed 5 years ago
4
Extract per-gene-per-mutation rates from partis

#1 BrandenOlson closed 5 years ago
1