eturro mmseq issues - Githubissues

eturro / mmseq

Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads

GNU General Public License v2.0

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How to run MMDIFF to perform Bayesian polytomous model using raw reads count matrix as input?

#51 farhan-lab closed 11 months ago
1
Aggregate transcripts into groups by UTR

#50 taigalokhid closed 3 years ago
2
Crash on large metatranscriptomics database

#49 fdelogu opened 3 years ago
7
gcc-10: error: no post-decrement operator for type

#48 junaruga closed 4 years ago
2
mmdiff index out of bounds error

#47 jjenny closed 4 years ago
4
Latest release does not contain pre-compiled binaries

#46 hiraksarkar opened 4 years ago
3
Quantified expression does not go along with read counts

#45 weishwu opened 4 years ago
2
Suggestion: adding a simple test with small sized data

#44 junaruga opened 4 years ago
0
Flipped ASE because of mapping issues

#43 weishwu opened 5 years ago
0
How to apply "--best --strata" for paired-end reads?

#42 weishwu closed 5 years ago
23
Wrong tag 10.0.10a?

#41 junaruga closed 5 years ago
4
Add shebang to usage.sh

#40 junaruga closed 5 years ago
0
Convert mmseq to use the HTSlib API instead of the legacy samtools API

#39 jmarshall closed 5 years ago
1
Enable Travis CI (Continuous Integration) with Ubuntu and Fedora.

#38 junaruga closed 5 years ago
2
Which version of samtools are you using?

#37 junaruga closed 5 years ago
1
How to use mmcollapse for diploid transcriptome?

#36 weishwu opened 5 years ago
12
Is it advised to remove transcripts with zero unique_hits?

#35 weishwu opened 5 years ago
2
No *.mmseq output

#34 weishwu opened 5 years ago
10
How to calculate ASE significance from MMSeq outputs

#33 weishwu closed 5 years ago
1
What are the transcripts in *_mmseq.trace_gibbs.gz

#32 weishwu closed 5 years ago
0
Which output contains logFPKM of each transcript?

#31 weishwu closed 5 years ago
0
haploref.rb error

#30 weishwu closed 5 years ago
1
How to run haploref.rb

#29 weishwu closed 5 years ago
1
designed a matrix for identifying genes that are differential expression over all groups

#28 weiiioyo opened 6 years ago
7
Pairing samples

#27 tataderby opened 6 years ago
1
A 2^3 factorial design matrix

#26 ndrubins opened 7 years ago
1
A model matrix for estimating the effect of a numeric variable on expression levels

#25 ndrubins closed 5 years ago
11
Compilation problem on Fedora

#24 verdurin closed 7 years ago
1
A model matrix for estimating the effect of a covariate on treatment vs. control fold change between two groups

#23 ndrubins closed 5 years ago
6
Interpretation of a model for assessing the fold-change difference between two pairs of groups

#22 ndrubins closed 7 years ago
11
Error: collinearity in combined matrix of intercept and covariates for model 0

#21 abhisheksinghnl opened 7 years ago
3
Gene ID to Gene name

#20 abhisheksinghnl closed 8 years ago
7
Refining the table of polytomous result

#19 abhisheksinghnl opened 8 years ago
13
mmseq error

#18 ickou opened 8 years ago
2
Setting up matrix and identifying specific gene clusters

#17 abhisheksinghnl opened 8 years ago
12
Editing reference file

#16 abhisheksinghnl closed 8 years ago
6
High percentage of reads are not mapping

#15 abhisheksinghnl closed 8 years ago
1
Compilation failures with Fedora 24

#14 verdurin opened 8 years ago
1
how to supply regex for bam2hits with single sequence name?

#13 n-long closed 8 years ago
5
Matrices for time series-two conditions

#12 alabastida1 closed 8 years ago
2
Matrices for time series-one condition

#11 alabastida1 closed 8 years ago
2
Add C++11 compatibility fixes

#10 verdurin closed 8 years ago
0
Compilation failure with GCC 6

#9 verdurin closed 8 years ago
3
mmcollapse-linux error: arma::memory::acquire(): out of memory

#8 john321123 closed 8 years ago
5
Making sample-specific transcript FASTAs through genotyping and phasing:

#7 olneykimberly opened 8 years ago
8
haploref.rb

#6 olneykimberly closed 8 years ago
0
bam2hits.cpp:669: pointless allocation ?

#5 dcb314 closed 8 years ago
1
Build error for Fedora 23

#4 verdurin closed 9 years ago
1
mmseq STAR aligner

#3 jeffhsu3 opened 9 years ago
9
regex

#2 sethfrietze closed 9 years ago
1