alexdobin STAR issues - Githubissues

alexdobin / STAR

RNA-seq aligner

MIT License

1.87k stars 506 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

STARsolo and Cellranger (v8) differences in estimating number of cells

#2245 angelasanzo opened 1 day ago
0
Add RG ID to cell barcodes

#2244 drneavin opened 1 day ago
0
How to include the lane index in STARsolo count matrix barcodes.tsv?

#2243 mkarikom opened 2 days ago
0
How to perform corrected Cell Barcode/UMI calling with an externally sorted BAM?

#2241 mkarikom opened 1 week ago
0
bam sort silently fails

#2240 mkarikom closed 1 week ago
1
Velocyto question

#2239 Liripo opened 1 week ago
1
STARsolo settings for SMART-seq3

#2238 apredeus opened 2 weeks ago
0
What's the difference between "outSAMstrandField" and "outFilterIntronMotifs RemoveNoncanonical"

#2237 hungweichen0327 opened 2 weeks ago
0
Multi Mapping Loci Meaning

#2236 mattg478 opened 2 weeks ago
0
Indexing a 2.6GB Plant Genome Using STAR (genomeGenerate Mode) Terminated Due to RAM Limit — Can the Genome Be Split for Indexing, or Are There Other Solutions?

#2235 Vijithkumar2020 opened 2 weeks ago
0
Custom refgen generation (scRNA)

#2234 radiasso opened 2 weeks ago
0
Indexing transcriptome bam file

#2233 aayushraman opened 2 weeks ago
0
transcriptInfo.tab format

#2232 starkiller-liuzhiming opened 3 weeks ago
0
Uniquely mapped reads number

#2231 hamzaaitabbou96 opened 3 weeks ago
0
Question about Read Length parameter during reference creation

#2230 Motoufiq opened 3 weeks ago
0
Overrepresentation of Reads Mapping to Intronic Regions

#2229 Matthieu-Duot opened 1 month ago
0
soloUMIdedup 1MM_Directional_UMItools and 1MM_Directional difference.

#2228 araboapresyan opened 1 month ago
0
Mapping speed of STAR is very different for similar bam

#2227 dingyaozhang opened 1 month ago
0
Corrupt SAM/BAM file due to NULL injected into MD tag with two-pass

#2226 btownshend opened 1 month ago
0
soloType CB_UMI_Complex is incompatible with soloCBwhitelist None

#2225 aepstein96 opened 1 month ago
0
Reference genome file download problem

#2224 FeeFaysalTusar opened 1 month ago
0
Add index sequence to Unmapped read FASTQ headers

#2223 andrewkennard opened 1 month ago
0
STARsolo run with --soloType CB_UMI_Complex uses too much memory.

#2222 brgew opened 1 month ago
1
Much fewer than expected exons.

#2221 EvanKomp opened 1 month ago
0
--soloType CB_UMI_Complex ,didn't match barcodes or UMIs

#2219 StardDii opened 1 month ago
1
```--outSAMunmapped Within``` some reads being lost

#2218 alexander-e-f-smith opened 1 month ago
0
Error in compiling in linux

#2217 faraza621 opened 1 month ago
0
Analyzing SMART-Seq data (paired end) as CB_UMI_Simple

#2216 pchaturvedi-takara opened 2 months ago
0
STARsolo parameters to match new 10x GEM chemistry

#2215 ekiernan opened 2 months ago
0
STAR solo adapter sequences all A's after 31 bp

#2214 mohammedmsk opened 2 months ago
0
STAR manual cannot be normally opened

#2213 Abieskawa closed 2 months ago
1
A question about align reverse forward stranded RNAseq data

#2211 QianhuiWan opened 2 months ago
0
Question about sequencing saturation

#2210 zk-P opened 2 months ago
0
Gff3, no gene name in ouput - MissingGeneID

#2209 desmodus1984 opened 2 months ago
0
Error during mapping to mitochondrial genome

#2208 desmodus1984 opened 2 months ago
0
Only one sample is Mapped

#2207 Gabriela-PH opened 2 months ago
3
STARsolo UMI calling problem (UMI position shift) after cell barcode correction by barcode whitelist

#2205 s-shichino1989 opened 2 months ago
0
STARsolo for chimeric reads

#2203 Sogand65 opened 3 months ago
0
FATAL ERROR in input read file: the total length of barcode sequence is 151 not equal to expected 28, and also not mapped reads

#2202 lopezCascales opened 3 months ago
2
STARSolo, alignment of Scell from different lanes

#2201 oneito opened 3 months ago
0
[2.7.10b] Read length in FATAL ERROR message does not match actual read length

#2200 sbresnahan opened 3 months ago
2
Fatal INPUT FILE error, no exon lines in the GTF file

#2199 Alecrim24 opened 3 months ago
0
Alignement of viral genome with reads from infected host

#2198 LioLenr opened 3 months ago
0
Some reads do not seem to be assigned to genes correctly by starsolo

#2197 zhouyiqi91 opened 3 months ago
0
STAR hangs at 300% CPU

#2196 Redmar-van-den-Berg opened 3 months ago
0
--quantMode GeneCounts output lacks two T-cell receptor genes compared to htseq-count

#2195 mkazanov opened 3 months ago
0
soloUMIfiltering distribution tracking?

#2194 jamesnemesh opened 3 months ago
0
Chimeric reads very high

#2193 manjumoorthy95 opened 3 months ago
0
Parameters for 10x 5' alignment

#2192 rishvanth-kp opened 3 months ago
1
secondary alignment bit in flag not set for unmapped mate of a pair with the other mate mapped

#2190 ankebusch opened 3 months ago
0