deweylab RSEM issues - Githubissues

deweylab / RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

http://deweylab.biostat.wisc.edu/rsem/

GNU General Public License v3.0

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issues

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Allow User Specification of stat Folder Location

#68 DarioS opened 7 years ago
0
Percentage of Bases Covered By Reads Enhancement

#67 DarioS opened 7 years ago
0
rsem-parse-alignments Lacks Adequate Documentation

#66 DarioS opened 7 years ago
0
Update to Samtools 1.4

#65 DarioS opened 7 years ago
0
Incorrect Version Number Displayed

#64 DarioS closed 6 years ago
3
Misleading GTF Parsing Error

#63 DarioS opened 7 years ago
0
Allow Bowtie 2 Local Mapping

#62 DarioS opened 7 years ago
0
RSEM Without Gene Database

#61 DarioS opened 7 years ago
0
rsem-generate-ngvector( 1.3.0) failed

#60 wangyugui opened 7 years ago
2
EOF marker is absent

#59 ckr123tw opened 7 years ago
1
process-chipseq.R Error in rbindlist(bplapply(files, guessFqEncodingByFile))

#58 crazyhottommy closed 7 years ago
4
RSEM prepare references

#57 dborgesr opened 7 years ago
0
inconsistent read length

#56 ESjokvist opened 7 years ago
3
My calculations of the TPMs are different from RSEM outputs

#55 Jerry001 opened 7 years ago
1
pRSEM ValueError: max() arg is an empty sequence

#54 crazyhottommy closed 7 years ago
8
mask/ignore rRNA when rsem-calculate-expression, but not rsem-prepare-reference

#53 wangyugui closed 7 years ago
4
make ebseq fails to make

#52 lachlansimpson opened 7 years ago
3
rsem-calculate-expression error

#51 Huffyphenix opened 7 years ago
10
rsem-generate-data-matrix question

#50 agelber closed 7 years ago
3
rsem-prepare-reference with STAR using Trusted Sources

#49 deto opened 7 years ago
2
Fix in rsem-gff3-to-gtf for Python3 compatibility

#48 deto opened 7 years ago
0
Line 30 error report text

#47 Ceallaig33 closed 7 years ago
1
problem installing under cygwin

#46 jchenpku closed 7 years ago
3
RSEM cannot calculate credibility intervals on Debian 7.8

#45 emi80 closed 7 years ago
1
Fix documentation, replace gzipped-read-file with star-gzipped-read-file

#44 atsky closed 2 years ago
0
Isoforms Results Contains Large Expected Counts When Unsupported by Reads

#43 DarioS closed 7 years ago
4
Mapped Reads to Transcripts Are Sometimes Unsorted

#42 DarioS closed 7 years ago
1
Please clarify license of IDR source code in pRSEM directory

#41 mr-c closed 7 years ago
5
Adjust POD to produce better manual pages

#40 mr-c closed 7 years ago
1
Spelling fixes

#39 mr-c closed 7 years ago
1
Prepare reference error

#38 abdelrahmanhosny closed 7 years ago
1
Output BAM File Contains Inconsistent Read IDs

#37 DarioS closed 7 years ago
1
make pRSEM compatible with R 3.3 and BioConductor 3.3

#36 pliu55 closed 7 years ago
0
rsem-plot-model result issue

#35 user611 closed 7 years ago
1
Strand Specific Mapping Performs Poorly

#34 DarioS closed 7 years ago
3
rsem-calculate-expression error

#33 komalsrathi closed 7 years ago
2
RSEM Handling of GENCODE Genes

#32 DarioS closed 7 years ago
2
Incorrect parameters/options

#31 komalsrathi closed 7 years ago
3
rsem-parse-alignments error

#30 jwisrael closed 7 years ago
4
rsem-prepare-reference Refseq

#29 jmwhitha closed 7 years ago
7
Update README.md for pRSEM

#28 pliu55 closed 7 years ago
0
merge prior-enhanced RSEM (pRSEM) to the latest RSEM code

#27 pliu55 closed 7 years ago
0
`rsem-run-ebseq` is not installed by `make install`

#26 wass80 closed 7 years ago
2
Links to specific help document pages broken

#25 thomasyu888 closed 8 years ago
2
Does it need to create the fastq-index files?

#24 Hecate08 closed 7 years ago
6
add whatisdb compatible descriptions

#23 mr-c closed 8 years ago
1
make boost dependency overridable by packagers & add standard flags

#22 mr-c closed 8 years ago
1
spelling fixes, courtesy lintian

#21 mr-c closed 8 years ago
0
Standardize compiler variables and allow override, add install target

#20 outpaddling closed 8 years ago
1
Convert RSEM to use the HTSlib API instead of the legacy samtools API

#19 jmarshall closed 8 years ago
4

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