r3fang SnapATAC issues - Githubissues

r3fang / SnapATAC

Analysis Pipeline for Single Cell ATAC-seq

GNU General Public License v3.0

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Using only .snap file from publication for SnapATAC analysis

#260 Jasminefighter opened 5 months ago
0
Homer

#259 gengbaobao closed 5 months ago
0
createGmatFromMat ERROR

#258 gengbaobao opened 5 months ago
1
'CEMBA180305_2B.snap' no snap object in "Integrative Analysis of 10X and snATAC"

#257 aminbensaad opened 6 months ago
0
FIX replace defunct Matrix::rBind with base::rbind

#256 imran-aifi opened 1 year ago
0
snapRbind uses defunct function rBind

#255 imran-aifi opened 1 year ago
0
Troubles with homer findknownmotifs.pl

#254 sanjanabhatnagar opened 1 year ago
0
Troubles while creating snap file with bam

#253 HieuNg1598 opened 1 year ago
0
Can we determ the chromatin accessibility for one single cell?

#252 biozzq opened 1 year ago
0
Merging multiple fragment samples

#251 seoyeonoh12 opened 1 year ago
0
Error in createSnap.default

#250 khain2650 closed 1 year ago
1
Transitioning from v1 to v2 SnapATAC

#249 mej54 opened 1 year ago
0
snaptools for plant genome

#248 304243504 opened 2 years ago
0
failed to read alignments from BAM

#247 kunalkathuria opened 2 years ago
2
converting signac object to snap atac

#246 hamidsta opened 2 years ago
0
General package installation/download difficulty - especially interopability with seurat

#245 BradleyH017 opened 2 years ago
0
[Error: Cholmod error 'problem too large']: when integrating multiple matrix using snapRbind function

#244 murphchuyi opened 2 years ago
1
GM and PM not found by snapAtac

#243 rLannes opened 2 years ago
1
Error in calGmatFromMat()

#242 swttalyan opened 2 years ago
0
gencode.vM16.gene.bed download

#241 linhch5 opened 2 years ago
0
error In runKNN（）

#240 1221li opened 2 years ago
0
HDF5-Diag issue

#239 ldudley7 closed 2 years ago
0
Installation issues

#238 darlene003 opened 2 years ago
4
runEigDecomp function results in NaN

#237 marvinquiet opened 2 years ago
0
error ‘rBind’ in addBmatToSnap

#236 ifyouaresober closed 2 years ago
1
The documents in http://renlab.sdsc.edu/r3fang/share/Fang_2019/MOs_snATAC can't be downloaded. The links aren't accessible

#235 ifyouaresober opened 2 years ago
2
Error" 'rBind' is defunct.

#234 AndresLugoCas opened 2 years ago
5
Update the Snapatac

#233 tzhu-bio opened 2 years ago
0
i cannot import phenograph because of this

#232 vinu2004 opened 3 years ago
0
Analyzing multiple samples with separate barcode information

#231 Xinyi371 opened 3 years ago
0
Unmet Dependencies

#230 kgj1234 opened 3 years ago
0
Can't install the package in r 3.5

#229 Xinyi371 opened 3 years ago
1
runDiffusionMapsExtension: peat not pmat??

#228 Fiona-Pan opened 3 years ago
0
can I use this for scTHS seq?

#227 ShaeLei opened 3 years ago
0
How to use Nystrom

#226 JingxinGuo opened 3 years ago
0
snaptools align-paired-end error

#225 ZHIDIHUAYUAN opened 3 years ago
1
Update README.md

#224 hbeale opened 3 years ago
0
Error in addBmatToSnap

#223 strawberry789 opened 3 years ago
1
Weird promoter ratio versus log10(UMI) curve

#222 strawberry789 opened 3 years ago
2
Drosophila melanogaster correspondence for mouse "gencode.vM16.gene.bed" to run Gene-based annotation

#221 strawberry789 opened 3 years ago
1
Removing b'chr1' from peak files generated from macs2 in R for homer/chromVar

#220 kendyhoangucsc opened 3 years ago
0
error in runDiffusionMaps

#219 tianchen2019 opened 3 years ago
0
Homer run error

#218 leeanapeters opened 3 years ago
2
Possible bug in snaptools dex-fastq, on snATAC dataseq generated with latest 10X snATAC V1.1 chemistry

#217 Qi-Yang-Bioinfo opened 3 years ago
0
Questions on entry point to make snap files from 10x datasets

#216 shhxiao19 opened 3 years ago
0
atac_v1_adult_brain_fresh_5k_singlecell.csv

#215 sebboegel opened 3 years ago
0
Bug in runJaccard()

#214 kridsadakorn opened 3 years ago
2
runMagic problem too large

#213 hejing3283 opened 3 years ago
1
Using scrublet with SnapATAC

#212 trinevd opened 3 years ago
0
runChromVAR() error: Error in isVirtualExt(exti) :

#211 zhaoliyang0429 opened 3 years ago
2