Merge pull request #12 from baigal628/add_chromap

Add Chromap

README.md

@@ -9,7 +9,11 @@
 
 **MAESTRO**(**M**odel-based **A**nalys**E**s of **S**ingle-cell **T**ranscriptome and **R**egul**O**me) is a comprehensive single-cell RNA-seq and ATAC-seq analysis suit built using [snakemake](https://bitbucket.org/snakemake/snakemake/wiki/Home). MAESTRO combines several dozen tools and packages to create an integrative pipeline, which enables scRNA-seq and scATAC-seq analysis from raw sequencing data (fastq files) all the way through alignment, quality control, cell filtering, normalization, unsupervised clustering, differential expression and peak calling, celltype annotation and transcription regulation analysis. Currently, MAESTRO support [Smart-seq2](https://www.ncbi.nlm.nih.gov/pubmed/24385147), [10x-genomics](https://www.10xgenomics.com/solutions/single-cell/), [Drop-seq](https://www.cell.com/abstract/S0092-8674(15)00549-8), [SPLiT-seq](https://science.sciencemag.org/content/360/6385/176) for scRNA-seq protocols; [microfudics-based](https://www.ncbi.nlm.nih.gov/pubmed/26083756), [10x-genomics](https://www.10xgenomics.com/solutions/single-cell-atac/) and [sci-ATAC-seq](https://science.sciencemag.org/content/348/6237/910) for scATAC-seq protocols.
 
-## Documentation  
+<p align="center">
+<img src="./image/MAESTRO_workflow.png"/>
+</p>
+
+## Documentation
 
 We are hosting MAESTRO documentation, instruction and tutorials at [MAESTRO Website](https://baigal628.github.io/MAESTRO_documentation/).
 

conda/MAESTRO/meta.yaml

@@ -16,7 +16,7 @@ requirements:
     - h5py >=2.10.0
     - pytables >=3.6.1
     - setuptools
-    - snakemake >=5.14
+    - snakemake =6.0.2
     - rseqc >=3.0.0
     - star =2.7.6a
     - chromap =0.1
@@ -88,7 +88,7 @@ requirements:
     - h5py >=2.10.0
     - pytables >=3.6.1
     - setuptools
-    - snakemake >=5.14
+    - snakemake =6.0.2
     - rseqc >=3.0.0
     - star =2.7.6a
     - chromap =0.1