liulab-dfci MAESTRO issues

liulab-dfci / MAESTRO

Single-cell Transcriptome and Regulome Analysis Pipeline

GNU General Public License v3.0

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issues

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Issue with Analysis - atac_pbmc_5k_nextgem_scATAC_validcells.txt File is Empty

#169 AfterDream closed 3 months ago
0
Script for Generating Gene bed files

#168 htong3031 opened 10 months ago
0
Error - overlapping regions in bedGraph line

#167 Chenjunjie1996 opened 11 months 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 2 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
Installation error with conda

#119 preetida closed 3 years ago
1
To make MAESTRO compatible with Seurat V4

#118 DongqingSun96 closed 3 years ago
0