hartleys QoRTs issues - Githubissues

hartleys / QoRTs

Quality of RNA-Seq Toolset

52 stars 14 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Definition of good and bad overlapped read pairs

#91 SJJHK opened 11 months ago
0
Question: Caught exception in calcReferenceMatch on read

#90 Rhinogradentia opened 1 year ago
0
Excessive RAM usage

#89 royfrancis opened 1 year ago
6
Paired end data where R1 length =/= R2 length

#88 dzhang12 opened 2 years ago
0
Extracting exon and junction coordinates and read/junction count info

#87 gacatag opened 2 years ago
0
Error message: "FATAL ERROR: OutputGtfLine checkFmt: Attribute gene_id not found!

#86 libj5 opened 3 years ago
0
ERROR: EfficientGenomeSeqContainer: Attempted to extend buffer beyond chromosome span

#85 royfrancis closed 3 years ago
4
Aggregate gene mode in Qorts

#84 scseekers opened 4 years ago
0
Error info: Exception in thread "main" java.util.NoSuchElementException

#83 royfrancis opened 4 years ago
0
How to generate QC.spliceJunctionCounts.novelSplices.txt.gz files

#82 HeenaBioinfo opened 4 years ago
2
FATAL ERROR Error info: Exception in thread "main" java.lang.NullPointerException

#81 IlariaPalmi opened 4 years ago
1
Exception: SYNTAX ERROR!

#80 IlariaPalmi closed 4 years ago
3
"IMMPOSSIBLE STATE! FATAL ERROR!" with Hisat2 data - Bioconda installation

#79 J-Calvelo opened 4 years ago
5
AUTO GENERATE PLOTS R SCRIPT NOT WORKING

#78 mya2152 opened 4 years ago
1
QoRTs is looking for a random file which does not exist

#77 mya2152 closed 5 years ago
1
Exception in thread "main" java.io.FileNotFoundException: /gpfs/ts0/projects/Research_Project-T113519/qc_collection/QoRTs_output/QC.9gZCUFz5rnuA.log (No such file or directory)

#76 mya2152 closed 5 years ago
1
java.lang.UnsupportedOperationException: empty.min

#75 Hrovatin opened 5 years ago
0
Get normalized read count for some genomic localizations

#74 mmagnus opened 5 years ago
1
Fixing README to be compatible with Markdown

#73 mmagnus opened 5 years ago
0
ReadPairs_ADV - QC.summary.txt

#72 bio-la opened 5 years ago
1
Is version 1.3.6 stable?

#71 rspreafico-vir closed 5 years ago
2
Does QoRTs can take more than one fastq files ?

#70 paulinefx opened 6 years ago
1
Empty Counts File

#69 sanchari24 opened 6 years ago
8
High DROPPED_NOT_PROPER_PAIR and persistent warning about strandedness

#68 reventropy closed 6 years ago
4
multiple input bam files

#67 ccshao opened 6 years ago
2
QoRTs error after aligning with STAR

#66 ghost opened 6 years ago
7
Exception in thread "main" java.lang.NoClassDefFoundError

#65 topherconley opened 6 years ago
1
QoRTs version 1.30 OutputGtfLine checkFmt: Attribute num not found!

#64 chelauk opened 6 years ago
1
SAM Validation Error

#63 kcornick opened 6 years ago
0
Clarification on renamed Single Ended option

#62 fbearoff opened 6 years ago
0
RuntimeIOException: java.io.FileNotFoundException: --stranded

#61 ag009 closed 6 years ago
1
DROPPED_PAIR_STRANDS_MISMATCH

#60 fangpingmu closed 6 years ago
0
cannot find chromosome in genome FASTA file

#59 AndrewLangvt opened 6 years ago
1
understanding Mapping location rates

#58 ccshao closed 6 years ago
2
long read QC

#57 ehhill opened 6 years ago
10
FASTA file error message

#56 fp215 opened 6 years ago
5
Extension: Interactive plotting

#55 topherconley opened 6 years ago
0
Java version for QoRTs?

#54 ytakemon opened 6 years ago
2
question

#53 woshi0655 opened 6 years ago
0
no output for "--runFunctions StrandCheck,GeneCalcs"

#52 ccshao closed 6 years ago
9
the lack of a file

#51 chyr03 opened 7 years ago
1
Memory error

#50 royfrancis opened 7 years ago
15
Error message: "SYNTAX ERROR! Unrecognized Argument: inputData/SRC121.bam"

#49 spiya closed 7 years ago
1
Can QoRTs be used for DNASeq BAM QC?

#48 royfrancis closed 7 years ago
5
A question

#47 chyr03 opened 7 years ago
1
Error with mergeNovelSplices

#46 markusglass closed 7 years ago
1
Change plotting order / Overplotting

#45 royfrancis closed 7 years ago
3
Hisat2 support

#44 ctxchris closed 7 years ago
2
qc results read error

#43 royfrancis closed 7 years ago
11
Reads dropped in BAM file due to alignment to inconsistent strands

#42 nlawlor closed 7 years ago
10