error merging Index data frame with UMAP

[coolmak32]

Hello, I am following the tutorial posted by Basilkhuder on doing RNA velocity estimation on Seurat object (https://github.com/basilkhuder/Seurat-to-RNA-Velocity)

I am having an error where, the command is given to merge the index data frame with UMAP to match the order pf anndata which is generating an error. Please see the attached output:

import anndata
import scvelo as scv
import pandas as pd
import numpy as np
import matplotlib as plt
sample_one = anndata.read_loom("cellRanger.loom")
sample_obs = pd.read_csv("cellID_obs.csv")
umap_cord = pd.read_csv("cell_embeddings.csv")
cell_clusters = pd.read_csv("clusters.csv")
sample_one = sample_one[np.isin(sample_one.obs.index,sample_obs["x"])]
umap = pd.read_csv("cell_embeddings.csv")
sample_one.obs.index
sample_one_index = pd.DataFrame(sample_one.obs.index)
sample_one_index = sample_one_index.rename(columns = {0:'Cell ID'})
umap = umap.rename(columns = {'Unnamed: 0':'Cell ID'})
umap_ordered = sample_one_index.merge(umap, on = "Cell ID")

KeyError Traceback (most recent call last)
Cell In[16], line 1
----> 1 umap_ordered = sample_one_index.merge(umap, on = "Cell ID")

File ~/Documents/anaconda3/envs/ScveloR/lib/python3.10/site-packages/pandas/core/frame.py:10093, in DataFrame.merge(self, right, how, on, left_on, right_on, left_index, right_index, sort, suffixes, copy, indicator, validate)
10074 @substitution("")
10075 @appender(_merge_doc, indents=2)
10076 def merge(
(...)
10089 validate: str | None = None,
10090 ) -> DataFrame:
10091 from pandas.core.reshape.merge import merge

10093 return merge(
10094 self,
10095 right,
10096 how=how,
10097 on=on,
10098 left_on=left_on,
10099 right_on=right_on,
10100 left_index=left_index,
10101 right_index=right_index,
10102 sort=sort,
10103 suffixes=suffixes,
10104 copy=copy,
10105 indicator=indicator,
10106 validate=validate,
10107 )

File ~/Documents/anaconda3/envs/ScveloR/lib/python3.10/site-packages/pandas/core/reshape/merge.py:110, in merge(left, right, how, on, left_on, right_on, left_index, right_index, sort, suffixes, copy, indicator, validate)
93 @substitution("\nleft : DataFrame or named Series")
94 @appender(_merge_doc, indents=0)
95 def merge(
(...)
108 validate: str | None = None,
109 ) -> DataFrame:
--> 110 op = _MergeOperation(
111 left,
112 right,
113 how=how,
114 on=on,
115 left_on=left_on,
116 right_on=right_on,
117 left_index=left_index,
118 right_index=right_index,
119 sort=sort,
120 suffixes=suffixes,
121 indicator=indicator,
122 validate=validate,
123 )
124 return op.get_result(copy=copy)

File ~/Documents/anaconda3/envs/ScveloR/lib/python3.10/site-packages/pandas/core/reshape/merge.py:703, in _MergeOperation.init(self, left, right, how, on, left_on, right_on, axis, left_index, right_index, sort, suffixes, indicator, validate)
696 self._cross = cross_col
698 # note this function has side effects
699 (
700 self.left_join_keys,
701 self.right_join_keys,
702 self.join_names,
--> 703 ) = self._get_merge_keys()
705 # validate the merge keys dtypes. We may need to coerce
706 # to avoid incompatible dtypes
707 self._maybe_coerce_merge_keys()

File ~/Documents/anaconda3/envs/ScveloR/lib/python3.10/site-packages/pandas/core/reshape/merge.py:1179, in _MergeOperation._get_merge_keys(self)
1175 if lk is not None:
1176 # Then we're either Hashable or a wrong-length arraylike,
1177 # the latter of which will raise
1178 lk = cast(Hashable, lk)
-> 1179 left_keys.append(left._get_label_or_level_values(lk))
1180 join_names.append(lk)
1181 else:
1182 # work-around for merge_asof(left_index=True)

File ~/Documents/anaconda3/envs/ScveloR/lib/python3.10/site-packages/pandas/core/generic.py:1850, in NDFrame._get_label_or_level_values(self, key, axis)
1844 values = (
1845 self.axes[axis]
1846 .get_level_values(key) # type: ignore[assignment]
1847 ._values
1848 )
1849 else:
-> 1850 raise KeyError(key)
1852 # Check for duplicates
1853 if values.ndim > 1:

KeyError: 'Cell ID'

Can somebody please help me solving this error. I am only having a beginner's level expertise so please excuse if there is a very basic workaround for this issue.

Thank. you