liulab-dfci MAESTRO issues

liulab-dfci / MAESTRO

Single-cell Transcriptome and Regulome Analysis Pipeline

GNU General Public License v3.0

278 stars 78 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Support for gzipped FASTQ input in `sc_atac_preprocess`

#171 Billsfriend opened 1 month ago
0
Can MAESTRO run on rat?

#170 jdrnevich opened 1 month ago
0
Issue with Analysis - atac_pbmc_5k_nextgem_scATAC_validcells.txt File is Empty

#169 AfterDream closed 5 months ago
0
Script for Generating Gene bed files

#168 htong3031 opened 1 year ago
0
Error - overlapping regions in bedGraph line

#167 Chenjunjie1996 opened 1 year ago
0
ImportError: cannot import name typeDict

#166 KunFang93 opened 1 year ago
4
update the reference T2TCHM13 of scatac-genescore

#165 Starlitnightly opened 1 year ago
0
Obtaining 10X PBMC RNA and ATAC data from 2 different donors with annotations

#164 jules-samaran opened 1 year ago
0
Support for Trimodal data analysis (TEA seq, DOGMA seq)

#163 bioarpit1 opened 1 year ago
0
whitelist and input barcode lengths are not equal

#162 Bo-UT opened 1 year ago
1
ATACRunSeurat..RunSVD->RunSVD.Assay->RunSVD.default->irlba

#159 njohnso6 opened 2 years ago
1
Make a new reference gene file like GRCh38_refgenes.txt

#158 Starlitnightly closed 1 year ago
1
Use bedtools map instead of intersect in scATAC_10x_PeakCount?

#157 jeremymsimon closed 2 years ago
2
The problem of ATACCalculateGenescore

#156 yuxuanChen777 opened 2 years ago
0
therer the no argument for --frag

#155 wxl123wxl opened 2 years ago
0
Error when running 'macs2 callpeak..'

#154 loraince opened 2 years ago
0
chromap — Illegal instruction (core dumped)

#153 kOoLiNuS opened 2 years ago
3
Chromap, Less than 5% barcodes can be found or corrected based on the barcode whitelist

#152 genecell opened 2 years ago
1
Download of giggle index from Cistrome website: 404 Not Found

#151 Telogen opened 2 years ago
0
Error with snATAC peakcall: ZeroDivisionError

#150 itsyogeshd opened 2 years ago
0
Can not download maestro

#149 JianGuoZhou3 closed 2 years ago
1
question about Chromium Single Cell Multiome ATAC + Gene Expression

#148 mabelwang21 opened 3 years ago
2
conflict between scrna_parser and scrna_validator

#147 yxian9 closed 3 years ago
2
Please provide tutorials for Smartseq2

#146 Junjie-Hu opened 3 years ago
0
Release of v1.5.1

#145 baigal628 closed 3 years ago
0
Can't install maestro=1.5.0

#144 zuoyi93 closed 3 years ago
2
Chromap Error with MAESTRO 1.5.0

#143 LunaP-831 opened 3 years ago
2
Update change log in README.md

#142 baigal628 closed 3 years ago
0
Release of MAESTRO v1.5.0

#141 baigal628 closed 3 years ago
0
supported species

#140 pengxin2019 opened 3 years ago
10
Cannot install v1.4.0

#139 llk578496 closed 3 years ago
1
Unable to download the mapindex file for human from http://cistrome.org/~galib/Refdata_scRNA_MAESTRO_GRCh38_1.2.2.tar.gz

#138 llk578496 closed 3 years ago
2
question about scATAC bulk peak calling step when using the Fragment file as input

#137 yxian9 closed 3 years ago
2
Feat/multi sc rna

#136 ssmadha closed 3 years ago
0
Input seurat integration object

#135 mudappathir opened 3 years ago
1
error with ATACAnnotateChromatinAccessibility

#134 WWJiaxuan closed 3 years ago
2
Cannot download giggle.all.tar.gz

#133 WWJiaxuan closed 3 years ago
8
Run with predetermined clusters

#132 bc2zb closed 3 years ago
1
RNARunSeurat error at RunPCA stage

#131 mudappathir closed 3 years ago
2
Test file for ATAC-seq pipeline missing

#130 mudappathir closed 3 years ago
2
The 'percent.mito' and 'percent.ercc' are actually ratio not percentage.

#129 taoliu closed 3 years ago
1
Feat/multiome

#128 DongqingSun96 closed 3 years ago
0
Fix/long rna barcode reads

#127 ssmadha closed 3 years ago
8
error reading bam file

#126 taylor-shi closed 3 years ago
5
Error in ATACAnnotateTranscriptionFactor function

#125 strawberry789 closed 3 years ago
1
RNAAnnotateTranscriptionFactor - return all tfs?

#124 f6v closed 3 years ago
2
Fix bug of negative count value generated by scatac-peakcount

#123 DongqingSun96 opened 3 years ago
1
Error with QC report in ATAC

#122 preetida closed 3 years ago
4
Error Calls: ATACRunSeurat ... CreateSeuratObject.default -> CreateSeuratObject -> CreateSeuratObject.Assay

#121 jphe closed 3 years ago
3
New Release v1.4.0

#120 baigal628 closed 3 years ago
0